1) 18S amplicons

1.1) Data overview

The dataset “Taraspina 18S miTags” contains reads from 45 samples of Tara Oceans and from 10 samples of Malaspina. On average, each sample contains 4440 OTUs:

##    Min. 1st Qu.  Median    Mean 3rd Qu.    Max. 
##      93    1840    3086    4440    5808   23780


Overall reads per sample:

1.2) Normalization


In order to keep as many samples as possible, we rarefy at 1154 reads per sample. By that, we loose 10 samples, and after removing the exluded samples in the 16S dataset (to make them comparable), we end up with a normalized dataset containing 43 samples and 5669 OTUs.


Datasets summary:

dim(tb18_tax) #original dataset
## [1] 8642   57
dim(tb18_tax_occur) #original dataset with occurrence data alone
## [1] 8642   55
dim(tb18_tax_occur_min1154) #dataset without samples with less than 1154 OTUs
## [1] 8349   43
dim(tb18_tax_occur_ss1154_no_cero) #rarefied dataset
## [1]   43 5684

1.3) General community analysis

1.3.1) Richness and evenness (Shannon index)

Most of the samples take Shannon Index values around 6:

1.3.2) Richness: OTU number

Lowest number of OTUs per sample:

## [1] 353

Maximum number of OTUs per sample:

## [1] 807

In most of the samples, we can identify between 600 and 700 OTUs:

1.3.3) Index of evenness

1.3.3.1) Pielou’s index

The Pielou index (constrained between 0 and 1) takes values closer to 1 as the variation of species proportion in a sample increases. Most of the samples get values between 0.90 and 0.95, meaning that the numerical composition of different OTUs in a sample is highly variable - there’s no constant presence of dominant species.

1.3.4) Abundance Models

Most of the OTUs show very few occurrences, suggesting that we will probably be able to identify a significant ammount of rare otus:

1.3.4.1) Rank-Abundance or Dominance/Diversity Model (“radfit”)

The OTUs abundance distribution fits relativelly close to log-normal model.

1.3.4.2) Preston’s Log-normal Model

According to Preston’s lognormal model fitted into groups of species’ frequencies, we’re missing 1588.816 species:

## Extrapolated     Observed       Veiled 
##     9937.816     8349.000     1588.816


When computing Prestons’ lognormal model fit without pooling data into groups, we miss 1385.371 species:

## Extrapolated     Observed       Veiled 
##     9734.371     8349.000     1385.371

1.3.5) Rarefaction curves of rarefied and non-rarefied datasets

1.3.6) Beta diversity

1.3.6.1) Dissimilarity matrix using Bray-Curtis index:

The Bray-Curtis dissimilarity, constrained between 0 (minimum distance) and 1 (highest dissimilarity) allows us to quantify the differences between samples according to the composition and the relative abundance of their OTUs. In our dataset, most of the samples pairs take dissimilarity values around 0.8, meaning that their composition is substantially different.

1.3.6.2) Hierarchical clustering

The stations seem to form clusters according to geographic localization, but there are no evident clusters separated from the general groups, apart from the one containing TARA_84, TARA_82 and TARA_85.

(To be done: assign Longhurst provinces information to each station and check if any of the central clusters is meaningful regarding to the samples’ geographical location)

1.3.6.3) Non-metric multidimensional scaling

We can identify a prominent group in the central part of the NMDS plot and a few outliers (TARA 82, 84 and 85) in the central-right edge of the plot. The stress parameter takes a value below 0.2, suggesting that the plot is acceptable.

## 
## Call:
## monoMDS(dist = tb18_tax_occur_ss1154_no_cero.bray) 
## 
## Non-metric Multidimensional Scaling
## 
## 43 points, dissimilarity 'bray', call 'vegdist(x = tb18_tax_occur_ss1154_no_cero, method = "bray")'
## 
## Dimensions: 2 
## Stress:     0.1397828 
## Stress type 1, weak ties
## Scores scaled to unit root mean square, rotated to principal components
## Stopped after 55 iterations: Stress nearly unchanged (ratio > sratmax)

1.4) Geographical analysis

Communities quickly change their composition across geographical distances:

1.4.1) Mantel correlograms

Mantel statistic is -significantlly- so low, meaning that the correlation between samples dissimilarity and geographical distances is weak.

## 
## Mantel statistic based on Pearson's product-moment correlation 
## 
## Call:
## mantel(xdis = geo_distances_MP_18S, ydis = tb18_tax_occur_ss1154_no_cero.bray) 
## 
## Mantel statistic r: 0.1237 
##       Significance: 0.013 
## 
## Upper quantiles of permutations (null model):
##    90%    95%  97.5%    99% 
## 0.0671 0.0866 0.1087 0.1275 
## Permutation: free
## Number of permutations: 999

Correlograms:

MP_18s_ss1154_mantel_correl_by_1000km<-mantel.correlog(tb18_tax_occur_ss1154_no_cero.bray, D.geo=geo_distances_MP_18S, break.pts=seq(0,20000, by=1000))
plot(MP_18s_ss1154_mantel_correl_by_1000km)

MP_18s_ss1154_mantel_correl_by_100km<-mantel.correlog(tb18_tax_occur_ss1154_no_cero.bray, D.geo=geo_distances_MP_18S, break.pts=seq(0,20000, by=100))
plot(MP_18s_ss1154_mantel_correl_by_100km)

1.5) Abundance vs. occurence

OTUs distribution according to their percentage of occurence and relative abundance.
- red line: OTUs that occur in more than 80% of the samples.
- blue line: regionally abundant OTUs (> 0.1%).

Regionally abundant OTUs (relative abundance over 0.1%):

##     otu_names mean_rabund perc_occur                  classif
## 93     OTU_38 0.017451937  90.697674            Pelagophyceae
## 88   OTU_3677 0.014187256  79.069767         Prymnesiophyceae
## 126   OTU_751 0.010640442  39.534884 Prasinophyceae_clade-VII
## 116  OTU_5415 0.010237395  25.581395                     <NA>
## 81   OTU_3374 0.008484140  86.046512            Pelagophyceae
## 50   OTU_2494 0.007113780  72.093023         Prymnesiophyceae
## 55   OTU_2631 0.005783725  72.093023         Prymnesiophyceae
## 76   OTU_3177 0.005763573  46.511628          Mamiellophyceae
## 85   OTU_3569 0.005300069  46.511628          Mamiellophyceae
## 4    OTU_1032 0.005118697  69.767442         Prymnesiophyceae
## 134   OTU_933 0.004796260  95.348837         Prymnesiophyceae
## 80   OTU_3282 0.004735803  46.511628          Mamiellophyceae
## 89   OTU_3729 0.004272299  76.744186            Pelagophyceae
## 115  OTU_5120 0.004111080  39.534884          Mamiellophyceae
## 65   OTU_2910 0.003990166  74.418605                     <NA>
## 104  OTU_4144 0.003949861  46.511628          Mamiellophyceae
## 41   OTU_2200 0.003768490  90.697674                     <NA>
## 83   OTU_3454 0.003587119  76.744186                     <NA>
## 26   OTU_1921 0.003546814  86.046512         Prymnesiophyceae
## 78   OTU_3227 0.003425900  34.883721 Prasinophyceae_clade-VII
## 16   OTU_1597 0.003304986  83.720930         Prymnesiophyceae
## 105  OTU_4176 0.003264681  32.558140          Mamiellophyceae
## 109  OTU_4227 0.003244529  32.558140 Prasinophyceae_clade-VII
## 101  OTU_4123 0.003123615  39.534884 Prasinophyceae_clade-VII
## 72   OTU_3038 0.003103462  81.395349                     <NA>
## 10   OTU_1383 0.003083310  81.395349                     <NA>
## 13   OTU_1456 0.002942243  83.720930              Dinophyceae
## 141   OTU_974 0.002922091  65.116279         Prymnesiophyceae
## 23   OTU_1833 0.002781025  83.720930                     <NA>
## 132   OTU_896 0.002720567  72.093023                     <NA>
## 102  OTU_4125 0.002519044  81.395349            Pelagophyceae
## 99   OTU_4103 0.002418282  39.534884          Mamiellophyceae
## 70   OTU_2996 0.002377978  62.790698                     <NA>
## 30   OTU_2031 0.002337673  62.790698                     <NA>
## 138   OTU_950 0.002216759   4.651163         Prymnesiophyceae
## 79   OTU_3271 0.002196606  30.232558 Prasinophyceae_clade-VII
## 96   OTU_3926 0.002156302  62.790698            Pelagophyceae
## 95   OTU_3871 0.002136149  72.093023                     <NA>
## 103  OTU_4134 0.002075692  53.488372            Pelagophyceae
## 112  OTU_4518 0.002075692  37.209302          Mamiellophyceae
## 137   OTU_949 0.002055540  60.465116         Dictyochophyceae
## 84   OTU_3560 0.001954778  65.116279            Pelagophyceae
## 52   OTU_2553 0.001954778  81.395349                     <NA>
## 131   OTU_893 0.001934626  53.488372                     <NA>
## 45   OTU_2305 0.001874169  72.093023                     <NA>
## 3    OTU_1018 0.001833864  11.627907         Prymnesiophyceae
## 43   OTU_2269 0.001813712  81.395349                     <NA>
## 5    OTU_1047 0.001813712  67.441860                     <NA>
## 62   OTU_2868 0.001813712  53.488372                     <NA>
## 98   OTU_4090 0.001773407  30.232558          Mamiellophyceae
## 53    OTU_256 0.001733102  72.093023                     <NA>
## 125   OTU_717 0.001733102  67.441860              Dinophyceae
## 57   OTU_2654 0.001712950  69.767442            Pelagophyceae
## 108  OTU_4226 0.001712950  41.860465          Mamiellophyceae
## 21   OTU_1746 0.001692798  72.093023         Prymnesiophyceae
## 110  OTU_4260 0.001692798  46.511628          Mamiellophyceae
## 11   OTU_1395 0.001692798  20.930233                     <NA>
## 94    OTU_380 0.001672645  83.720930         Prymnesiophyceae
## 18   OTU_1635 0.001672645  74.418605                     <NA>
## 75   OTU_3124 0.001652493  65.116279                     <NA>
## 9    OTU_1343 0.001632340  69.767442              Dinophyceae
## 31   OTU_2043 0.001612188  60.465116                     <NA>
## 127   OTU_758 0.001612188  60.465116                     <NA>
## 130   OTU_884 0.001531579  81.395349                     <NA>
## 38    OTU_216 0.001531579  62.790698              Dinophyceae
## 140   OTU_973 0.001531579  62.790698                     <NA>
## 117  OTU_5484 0.001511426  34.883721          Mamiellophyceae
## 58   OTU_2686 0.001491274  74.418605                     <NA>
## 19   OTU_1641 0.001491274  72.093023              Dinophyceae
## 40   OTU_2195 0.001491274  72.093023              Dinophyceae
## 64   OTU_2887 0.001491274  69.767442                     <NA>
## 71   OTU_3018 0.001491274  67.441860                     <NA>
## 87    OTU_363 0.001491274  60.465116                     <NA>
## 67   OTU_2965 0.001491274  58.139535                     <NA>
## 113  OTU_4533 0.001450969  44.186047          Mamiellophyceae
## 42   OTU_2207 0.001450969  79.069767              Dinophyceae
## 32   OTU_2078 0.001450969  72.093023                     <NA>
## 51   OTU_2518 0.001410665  55.813953                     <NA>
## 59   OTU_2730 0.001390512  60.465116                     <NA>
## 107  OTU_4203 0.001390512  55.813953            Pelagophyceae
## 133   OTU_914 0.001370360  67.441860         Prymnesiophyceae
## 97   OTU_4089 0.001370360  37.209302          Mamiellophyceae
## 56   OTU_2648 0.001350208  79.069767                     <NA>
## 20   OTU_1694 0.001330055  67.441860                     <NA>
## 74   OTU_3056 0.001330055  65.116279                     <NA>
## 2    OTU_1012 0.001309903  65.116279                     <NA>
## 47   OTU_2429 0.001289751  74.418605         Prymnesiophyceae
## 128   OTU_793 0.001289751  74.418605                     <NA>
## 86   OTU_3602 0.001289751  62.790698                     <NA>
## 54   OTU_2594 0.001289751  58.139535                     <NA>
## 28   OTU_1997 0.001269598  81.395349         Prymnesiophyceae
## 12   OTU_1446 0.001269598  65.116279                     <NA>
## 122  OTU_6181 0.001269598  23.255814                     <NA>
## 123   OTU_628 0.001249446  60.465116              Dinophyceae
## 35   OTU_2120 0.001249446  58.139535                     <NA>
## 139   OTU_952 0.001249446  53.488372              Dinophyceae
## 124  OTU_6608 0.001249446  23.255814                     <NA>
## 119   OTU_584 0.001249446  11.627907                     <NA>
## 27   OTU_1929 0.001229293  44.186047          Mamiellophyceae
## 114   OTU_458 0.001209141  60.465116         Prymnesiophyceae
## 1    OTU_1001 0.001209141  53.488372                     <NA>
## 6    OTU_1066 0.001209141  44.186047         Prymnesiophyceae
## 44   OTU_2284 0.001188989  53.488372                     <NA>
## 73   OTU_3055 0.001188989  53.488372            Chrysophyceae
## 49   OTU_2466 0.001188989  51.162791                     <NA>
## 33   OTU_2086 0.001148684  58.139535              Dinophyceae
## 142   OTU_990 0.001148684  58.139535                     <NA>
## 39   OTU_2189 0.001148684  53.488372                     <NA>
## 82   OTU_3430 0.001148684  30.232558          Mamiellophyceae
## 61   OTU_2853 0.001148684  74.418605         Prymnesiophyceae
## 14   OTU_1496 0.001128532  72.093023                     <NA>
## 111   OTU_437 0.001128532  67.441860         Prymnesiophyceae
## 91   OTU_3751 0.001128532  48.837209                     <NA>
## 15   OTU_1551 0.001108379  67.441860                     <NA>
## 120   OTU_599 0.001108379  65.116279                     <NA>
## 69   OTU_2986 0.001108379  60.465116                     <NA>
## 77   OTU_3196 0.001108379  60.465116         Prymnesiophyceae
## 37   OTU_2158 0.001108379  58.139535         Prymnesiophyceae
## 7    OTU_1087 0.001108379  55.813953                     <NA>
## 135   OTU_936 0.001088227  53.488372                     <NA>
## 129   OTU_825 0.001088227  48.837209                     <NA>
## 66   OTU_2916 0.001088227  46.511628                     <NA>
## 17   OTU_1628 0.001068075  65.116279              Dinophyceae
## 25   OTU_1902 0.001068075  58.139535         Prymnesiophyceae
## 34   OTU_2089 0.001068075  53.488372                     <NA>
## 100  OTU_4115 0.001068075  51.162791                     <NA>
## 60   OTU_2811 0.001047922  46.511628                     <NA>
## 92   OTU_3754 0.001047922  46.511628                     <NA>
## 22   OTU_1825 0.001027770  55.813953                     <NA>
## 90    OTU_373 0.001027770  55.813953                     <NA>
## 63   OTU_2873 0.001027770  53.488372                     <NA>
## 106  OTU_4190 0.001027770  30.232558          Mamiellophyceae
## 118  OTU_5496 0.001027770   9.302326                     <NA>
## 136   OTU_938 0.001007618  65.116279                     <NA>
## 36   OTU_2124 0.001007618  62.790698         Dictyochophyceae
## 8    OTU_1261 0.001007618  60.465116                     <NA>
## 68   OTU_2966 0.001007618  60.465116                     <NA>
## 46   OTU_2365 0.001007618  53.488372                     <NA>
## 48   OTU_2453 0.001007618  53.488372                     <NA>
## 121     OTU_6 0.001007618  44.186047                     <NA>
## 29   OTU_2030 0.001007618  55.813953                     <NA>
## 24   OTU_1879 0.001007618  48.837209         Prymnesiophyceae
##                                                                                                                                                      OTUId
## 93                                    SILVA.v123_KF130487.1.1773_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Pelagomonadales;uncultured_eukaryote
## 88                                                       SILVA.v123_X77478.1.1803_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;Phaeocystis_antarctica
## 126                               SILVA.v123_KJ760716.1.1777_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Clade_VII;Subclade_B;uncultured_eukaryote
## 116                                                     SILVA.v123_AF315604.1.1807_Eukaryota;SAR;Stramenopiles;Bicosoecida;Pseudobodo;Pseudobodo_tremulans
## 81            SILVA.v123_AC236360.17941.19743_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Pelagomonadales;Aureococcus;Aureococcus_anophagefferens
## 50                                                  SILVA.v123_KF422607.1.1694_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;Haptophyceae_sp._CCMP2000
## 55                                                        SILVA.v123_AJ278037.1.1602_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;Phaeocystis_globosa
## 76  SILVA.v123_FR874477.1.1775_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Bathycoccus;uncultured_marine_picoeukaryote
## 85  SILVA.v123_FR874422.1.1776_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Bathycoccus;uncultured_marine_picoeukaryote
## 4                                                         SILVA.v123_AY851300.1.1802_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;Phaeocystis_globosa
## 134                                                      SILVA.v123_KJ763007.1.1798_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;uncultured_eukaryote
## 80         SILVA.v123_AACY020218946.53.1575_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Ostreococcus;marine_metagenome
## 89          SILVA.v123_ACJI01001310.5359.7147_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Pelagomonadales;Aureococcus;Aureococcus_anophagefferens
## 115           SILVA.v123_KJ763259.1.1763_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Ostreococcus;uncultured_eukaryote
## 65                                                                                   SILVA.v123_KJ763800.1.1807_Eukaryota;DH147_EKD10;uncultured_eukaryote
## 104 SILVA.v123_FR874693.1.1777_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Bathycoccus;uncultured_marine_picoeukaryote
## 41                                 SILVA.v123_KF130192.1.1763_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_III;uncultured_eukaryote
## 83                                   SILVA.v123_KJ763934.1.1796_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 26                                                   SILVA.v123_HM581633.1.1797_Eukaryota;Haptophyta;Prymnesiophyceae;OLI16010;uncultured_marine_eukaryote
## 78                           SILVA.v123_FJ537298.1.1778_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Clade_VII;Subclade_B;uncultured_Prasinophyceae
## 16                                                          SILVA.v123_KJ762902.1.1800_Eukaryota;Haptophyta;Prymnesiophyceae;OLI16010;uncultured_eukaryote
## 105    SILVA.v123_AF525858.1.1766_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Ostreococcus;uncultured_marine_eukaryote
## 109                          SILVA.v123_FJ537306.1.1756_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Clade_VII;Subclade_B;uncultured_Prasinophyceae
## 101                               SILVA.v123_KF031720.1.1747_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Clade_VII;Subclade_B;uncultured_eukaryote
## 72                                   SILVA.v123_KJ763586.1.1789_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 10                                                                        SILVA.v123_KJ763777.1.1804_Eukaryota;SAR;Alveolata;NIF_4C10;uncultured_eukaryote
## 13                                             SILVA.v123_KJ763154.1.1799_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;SCM15C35;uncultured_eukaryote
## 141                                                     SILVA.v123_KF620996.1.1754_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;uncultured_haptophyte
## 23                                                           SILVA.v123_JQ781940.1.1785_Eukaryota;SAR;Stramenopiles;MAST_1;MAST_1D;uncultured_stramenopile
## 132                                  SILVA.v123_KJ763301.1.1788_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 102             SILVA.v123_JN934690.1.1635_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Sarcinochrysidales;Ankylochrisis;Pelagophyceae_sp._RCC2505
## 99           SILVA.v123_AACY023218795.1.1233_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Bathycoccus;marine_metagenome
## 70                                   SILVA.v123_KF130265.1.1745_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 30                                                                      SILVA.v123_KC488619.1.1713_Eukaryota;Incertae_Sedis;Telonema;uncultured_Telonemida
## 138                                     SILVA.v123_KF130149.1.1755_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;Braarudosphaera;uncultured_eukaryote
## 79                            SILVA.v123_AJ402359.1.1758_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Clade_VII;Subclade_B;eukaryote_clone_OLI11345
## 96                   SILVA.v123_U40257.1.1813_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Pelagomonadales;Aureococcus;Aureococcus_anophagefferens
## 95                                  SILVA.v123_KJ760785.1.1797_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 103                SILVA.v123_JQ420078.1.1796_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Pelagomonadales;Aureococcus;Aureococcus_anophagefferens
## 112           SILVA.v123_KC583088.1.1775_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Micromonas;uncultured_Chlorophyta
## 137                                                SILVA.v123_KJ759450.1.1797_Eukaryota;SAR;Stramenopiles;Ochrophyta;Dictyochophyceae;uncultured_eukaryote
## 84                                 SILVA.v123_KC488601.1.1695_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Pelagomonadales;uncultured_stramenopile
## 52                                 SILVA.v123_KJ759432.1.1798_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_III;uncultured_eukaryote
## 131                                SILVA.v123_EU793380.1.1676_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_syndiniales
## 45                                SILVA.v123_EU793930.1.1664_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_syndiniales
## 3                                       SILVA.v123_KJ763100.1.1794_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;Braarudosphaera;uncultured_eukaryote
## 43                                   SILVA.v123_KJ763285.1.1791_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 5                                                               SILVA.v123_EF173010.1.1664_Eukaryota;SAR;Stramenopiles;MAST_1;MAST_1D;uncultured_eukaryote
## 62                                  SILVA.v123_KF129704.1.1753_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 98       SILVA.v123_AF525854.1.1776_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Micromonas;uncultured_marine_eukaryote
## 53                                   SILVA.v123_KJ763667.1.1784_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 125           SILVA.v123_KJ759460.1.1796_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;Gymnodiniphycidae;Kareniaceae;Karlodinium;uncultured_eukaryote
## 57                                                    SILVA.v123_KJ763141.1.1812_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;uncultured_eukaryote
## 108               SILVA.v123_AY955007.1.1727_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Micromonas;Micromonas_pusilla
## 21                                                      SILVA.v123_KF620989.1.1797_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;uncultured_haptophyte
## 110             SILVA.v123_KF130557.1.1738_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Micromonas;uncultured_eukaryote
## 11                                               SILVA.v123_DQ310274.1.1563_Eukaryota;SAR;Stramenopiles;Bicosoecida;Pseudobodo;uncultured_marine_eukaryote
## 94                                            SILVA.v123_KC488456.1.1659_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;OLI16029;uncultured_haptophyte
## 18                                 SILVA.v123_KJ759387.1.1799_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_III;uncultured_eukaryote
## 75                                                                    SILVA.v123_KJ763702.1.1796_Eukaryota;SAR;Rhizaria;Retaria;RAD_A;uncultured_eukaryote
## 9                                                    SILVA.v123_KJ763402.1.1791_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;B7;uncultured_eukaryote
## 31                                   SILVA.v123_KJ760589.1.1792_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 127                                 SILVA.v123_KF130519.1.1757_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 130                                  SILVA.v123_KF129962.1.1754_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 38                                             SILVA.v123_KJ762854.1.1799_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;SCM15C35;uncultured_eukaryote
## 140                                SILVA.v123_KJ759337.1.1800_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_III;uncultured_eukaryote
## 117                         SILVA.v123_FR874326.1.1777_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;uncultured_marine_picoeukaryote
## 58                                   SILVA.v123_KF130465.1.1754_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 19                                                  SILVA.v123_KJ763566.1.1798_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;B36;uncultured_eukaryote
## 40                         SILVA.v123_KJ759410.1.1799_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;Gymnodiniphycidae;Gyrodinium;uncultured_eukaryote
## 64                                                           SILVA.v123_GU823185.1.1396_Eukaryota;SAR;Stramenopiles;MAST_4;MAST_4F;uncultured_stramenopile
## 71                          SILVA.v123_KC488464.1.1700_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_III;uncultured_marine_alveolate
## 87                             SILVA.v123_AJ402349.1.1758_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_III;eukaryote_clone_OLI11005
## 67                                  SILVA.v123_KF130546.1.1757_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 113            SILVA.v123_FJ537303.1.1776_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Micromonas;uncultured_Micromonas
## 42                                             SILVA.v123_KJ763882.1.1802_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;SL163A10;uncultured_eukaryote
## 32                                   SILVA.v123_KJ762856.1.1793_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 51                                                                        SILVA.v123_KJ763625.1.1800_Eukaryota;SAR;Alveolata;SCM37C52;uncultured_eukaryote
## 59                                   SILVA.v123_KJ759527.1.1799_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 107             SILVA.v123_JF794050.1.1619_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Sarcinochrysidales;Ankylochrisis;Pelagophyceae_sp._RCC2040
## 133                                         SILVA.v123_AM779755.1.1802_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;Prymnesium;Prymnesium_palpebrale
## 97       SILVA.v123_HM581768.1.1760_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Micromonas;uncultured_marine_eukaryote
## 56                                  SILVA.v123_KJ763500.1.1801_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 20                                                                          SILVA.v123_JX188383.1.1765_Eukaryota;Picozoa;Picomonadida;uncultured_eukaryote
## 74                                  SILVA.v123_KJ763348.1.1800_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 2                                                            SILVA.v123_JQ781943.1.1807_Eukaryota;SAR;Stramenopiles;MAST_4;MAST_4F;uncultured_stramenopile
## 47                                      SILVA.v123_DQ369019.1.1798_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;OLI16029;uncultured_marine_eukaryote
## 128                                  SILVA.v123_KJ759134.1.1789_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 86                                  SILVA.v123_KJ759592.1.1801_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 54                                                                          SILVA.v123_KC488339.1.1675_Eukaryota;Picozoa;Picomonadida;uncultured_biliphyte
## 28                                                       SILVA.v123_KJ760407.1.1804_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;uncultured_eukaryote
## 12                                                           SILVA.v123_KJ759482.1.1801_Eukaryota;SAR;Stramenopiles;Ochrophyta;MOCH_2;uncultured_eukaryote
## 122 SILVA.v123_FR874360.1.1745_Eukaryota;SAR;Alveolata;Ciliophora;Intramacronucleata;Spirotrichea;Choreotrichia;uncultured;uncultured_marine_picoeukaryote
## 123                           SILVA.v123_KC582936.1.1795_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;Gymnodiniphycidae;SCM27C9;uncultured_alveolate
## 35                            SILVA.v123_JF826343.1.1605_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_marine_alveolate
## 139           SILVA.v123_KJ763684.1.1796_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;Gymnodiniphycidae;Kareniaceae;Karlodinium;uncultured_eukaryote
## 124                                 SILVA.v123_KJ760788.1.1795_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 119                                              SILVA.v123_AF280076.1.1787_Eukaryota;SAR;Alveolata;Protalveolata;Colpodellida;Voromonas;Voromonas_pontica
## 27            SILVA.v123_KJ763184.1.1781_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Ostreococcus;uncultured_eukaryote
## 114                                                      SILVA.v123_GQ863817.1.1709_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;uncultured_eukaryote
## 1                                                            SILVA.v123_KJ759516.1.1803_Eukaryota;SAR;Stramenopiles;Ochrophyta;MOCH_2;uncultured_eukaryote
## 6                                                      SILVA.v123_AF180940.1.1800_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;Phaeocystis_sp._PLY559
## 44                                  SILVA.v123_KF129645.1.1757_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 73                                        SILVA.v123_AY129063.1.1782_Eukaryota;SAR;Stramenopiles;Ochrophyta;Chrysophyceae;E222;uncultured_marine_eukaryote
## 49                                  SILVA.v123_JF790988.1.1777_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;Karlodinium_veneficum
## 33       SILVA.v123_GU820601.1.1201_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;Gymnodiniphycidae;Kareniaceae;Karlodinium;uncultured_dinoflagellate
## 142                           SILVA.v123_JF826317.1.1608_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_marine_alveolate
## 39                            SILVA.v123_KC488461.1.1687_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_marine_alveolate
## 82              SILVA.v123_GQ863805.1.1662_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Micromonas;uncultured_eukaryote
## 61                                                      SILVA.v123_KJ762999.1.1800_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;uncultured_eukaryote
## 14                                  SILVA.v123_KJ759353.1.1798_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 111                                                     SILVA.v123_KF129692.1.1759_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;uncultured_eukaryote
## 91                                                                  SILVA.v123_JQ781985.1.1807_Eukaryota;SAR;Stramenopiles;MAST_11;uncultured_stramenopile
## 15                                   SILVA.v123_KJ762893.1.1791_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 120                                 SILVA.v123_KJ759333.1.1794_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 69                                                           SILVA.v123_KC582982.1.1806_Eukaryota;SAR;Stramenopiles;MAST_4;MAST_4F;uncultured_stramenopile
## 77                                             SILVA.v123_KF129663.1.1757_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;OLI16029;uncultured_eukaryote
## 37                       SILVA.v123_AF107080.1.1795_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;OLI16029;unidentified_prymnesiophyte_clone_OLI16029
## 7                                    SILVA.v123_KF031588.1.1755_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 135                                  SILVA.v123_JX188306.1.1756_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_V;uncultured_eukaryote
## 129                                                          SILVA.v123_JQ782001.1.1776_Eukaryota;SAR;Stramenopiles;MAST_1;MAST_1B;uncultured_stramenopile
## 66                                  SILVA.v123_KC582940.1.1794_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_alveolate
## 17                                                  SILVA.v123_KJ763683.1.1799_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;B36;uncultured_eukaryote
## 25                                             SILVA.v123_KF130516.1.1755_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;OLI51059;uncultured_eukaryote
## 34                                   SILVA.v123_KJ759300.1.1793_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_V;uncultured_eukaryote
## 100                                 SILVA.v123_KJ760584.1.1798_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 60                                   SILVA.v123_KF130084.1.1751_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 92                                   SILVA.v123_KJ760745.1.1794_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 22                                  SILVA.v123_KF130023.1.1761_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 90                                                                        SILVA.v123_KJ760345.1.1797_Eukaryota;SAR;Alveolata;SCM37C52;uncultured_eukaryote
## 63                                                                   SILVA.v123_JQ781946.1.1806_Eukaryota;SAR;Stramenopiles;MAST_4;uncultured_stramenopile
## 106           SILVA.v123_KJ762855.1.1768_Eukaryota;Archaeplastida;Chloroplastida;Chlorophyta;Mamiellophyceae;Mamiellales;Ostreococcus;uncultured_eukaryote
## 118            SILVA.v123_KJ762455.1.1745_Eukaryota;SAR;Alveolata;Ciliophora;Intramacronucleata;Spirotrichea;Choreotrichia;uncultured;uncultured_eukaryote
## 136                                  SILVA.v123_KF129758.1.1746_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 36                    SILVA.v123_KC488605.1.1648_Eukaryota;SAR;Stramenopiles;Ochrophyta;Dictyochophyceae;Dictyochales;Florenciella;uncultured_stramenopile
## 8                                   SILVA.v123_KJ760603.1.1795_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 68                                                                   SILVA.v123_JQ782044.1.1803_Eukaryota;SAR;Stramenopiles;MAST_4;uncultured_stramenopile
## 46                                                                       SILVA.v123_GQ365865.1.1537_Eukaryota;Incertae_Sedis;Telonema;uncultured_eukaryote
## 48                                  SILVA.v123_KJ759424.1.1796_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_II;uncultured_eukaryote
## 121                                  SILVA.v123_KF031747.1.1743_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 29                                   SILVA.v123_KJ759570.1.1784_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 24                                                      SILVA.v123_KF620977.1.1797_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;uncultured_haptophyte

Number and roportion of regionally abundant OTUs (%):

## [1] 142
## [1] 2.498241


Cosmopolitan OTUs (relative abundance over 0.1% and occurence in more than 80% of samples):

##    otu_names mean_rabund perc_occur          classif
## 16   OTU_933 0.004796260   95.34884 Prymnesiophyceae
## 12    OTU_38 0.017451937   90.69767    Pelagophyceae
## 7   OTU_2200 0.003768490   90.69767             <NA>
## 11  OTU_3374 0.008484140   86.04651    Pelagophyceae
## 5   OTU_1921 0.003546814   86.04651 Prymnesiophyceae
## 3   OTU_1597 0.003304986   83.72093 Prymnesiophyceae
## 2   OTU_1456 0.002942243   83.72093      Dinophyceae
## 4   OTU_1833 0.002781025   83.72093             <NA>
## 13   OTU_380 0.001672645   83.72093 Prymnesiophyceae
## 10  OTU_3038 0.003103462   81.39535             <NA>
## 1   OTU_1383 0.003083310   81.39535             <NA>
## 14  OTU_4125 0.002519044   81.39535    Pelagophyceae
## 9   OTU_2553 0.001954778   81.39535             <NA>
## 8   OTU_2269 0.001813712   81.39535             <NA>
## 15   OTU_884 0.001531579   81.39535             <NA>
## 6   OTU_1997 0.001269598   81.39535 Prymnesiophyceae
##                                                                                                                                           OTUId
## 16                                            SILVA.v123_KJ763007.1.1798_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;uncultured_eukaryote
## 12                         SILVA.v123_KF130487.1.1773_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Pelagomonadales;uncultured_eukaryote
## 7                       SILVA.v123_KF130192.1.1763_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_III;uncultured_eukaryote
## 11 SILVA.v123_AC236360.17941.19743_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Pelagomonadales;Aureococcus;Aureococcus_anophagefferens
## 5                                         SILVA.v123_HM581633.1.1797_Eukaryota;Haptophyta;Prymnesiophyceae;OLI16010;uncultured_marine_eukaryote
## 3                                                SILVA.v123_KJ762902.1.1800_Eukaryota;Haptophyta;Prymnesiophyceae;OLI16010;uncultured_eukaryote
## 2                                   SILVA.v123_KJ763154.1.1799_Eukaryota;SAR;Alveolata;Dinoflagellata;Dinophyceae;SCM15C35;uncultured_eukaryote
## 4                                                 SILVA.v123_JQ781940.1.1785_Eukaryota;SAR;Stramenopiles;MAST_1;MAST_1D;uncultured_stramenopile
## 13                                 SILVA.v123_KC488456.1.1659_Eukaryota;Haptophyta;Prymnesiophyceae;Prymnesiales;OLI16029;uncultured_haptophyte
## 10                        SILVA.v123_KJ763586.1.1789_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 1                                                              SILVA.v123_KJ763777.1.1804_Eukaryota;SAR;Alveolata;NIF_4C10;uncultured_eukaryote
## 14   SILVA.v123_JN934690.1.1635_Eukaryota;SAR;Stramenopiles;Ochrophyta;Pelagophyceae;Sarcinochrysidales;Ankylochrisis;Pelagophyceae_sp._RCC2505
## 9                       SILVA.v123_KJ759432.1.1798_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_III;uncultured_eukaryote
## 8                         SILVA.v123_KJ763285.1.1791_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 15                        SILVA.v123_KF129962.1.1754_Eukaryota;SAR;Alveolata;Protalveolata;Syndiniales;Syndiniales_Group_I;uncultured_eukaryote
## 6                                             SILVA.v123_KJ760407.1.1804_Eukaryota;Haptophyta;Prymnesiophyceae;Phaeocystis;uncultured_eukaryote

Number and proportion (%) of cosmopolitan OTUs:

## [1] 16
## [1] 0.2814919

Number and proportion (%) of rare OTUs:

## [1] 0
## [1] 0

1.6) Taxonomic composition analysis

1.6.1) Normalized data


PHOTOTROPHS + HETEROTROPHS

No. of OTUs and reads of the rearefied dataset:

## [1] 5684
## [1] 49622

No. of OTUs and reads of phototrophic groups:

## [1] 1895
## [1] 20050

No. of OTUs and reads of non-phototrophic groups:

## [1] 3789
## [1] 29572


Absolute values

##                          reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae                    297            135                39
## Bolidophyceae                        136             21                36
## Chlorarachniophyceae                 109             14                28
## Chlorophyceae                         22             16                14
## Chrysophyceae                        610            133                42
## Cryptophyceae                        381             56                26
## Dictyochophyceae                     644             47                43
## Dinophyceae                         5441           1026                43
## Eustigmatophyceae                     96             21                36
## Heterotrophs                       29572           3789                43
## Mamiellophyceae                     3166             99                37
## Nephroselmidophyceae                  18              6                13
## Pavlovophyceae                        48              6                25
## Pelagophyceae                       2195             21                43
## Phaeophyceae                           1              1                 1
## Prasinophyceae_clade-IX               63             13                17
## Prasinophyceae_clade-VII            1370             31                38
## Prymnesiophyceae                    5192            168                43
## Pyramimonadaceae                     100             16                23
## Rhodophyceae                           8              7                 7
## Trebouxiophyceae                      42             30                17
## Ulvophyceae                            2              2                 2
## Xanthophyceae                          4              4                 4
## other_Prasinophyceae                 105             22                32


Relative values

##   reads_per_class    OTUs_per_class samples_per_class 
##           100.000           100.000          1516.279
##                          reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae            0.598524848     2.37508797         90.697674
## Bolidophyceae                0.274071984     0.36945813         83.720930
## Chlorarachniophyceae         0.219660634     0.24630542         65.116279
## Chlorophyceae                0.044335174     0.28149191         32.558140
## Chrysophyceae                1.229293459     2.33990148         97.674419
## Cryptophyceae                0.767804603     0.98522167         60.465116
## Dictyochophyceae             1.297811455     0.82688248        100.000000
## Dinophyceae                 10.964894603    18.05066854        100.000000
## Eustigmatophyceae            0.193462577     0.36945813         83.720930
## Heterotrophs                59.594534682    66.66080225        100.000000
## Mamiellophyceae              6.380234573     1.74173118         86.046512
## Nephroselmidophyceae         0.036274233     0.10555947         30.232558
## Pavlovophyceae               0.096731289     0.10555947         58.139535
## Pelagophyceae                4.423441216     0.36945813        100.000000
## Phaeophyceae                 0.002015235     0.01759324          2.325581
## Prasinophyceae_clade-IX      0.126959816     0.22871217         39.534884
## Prasinophyceae_clade-VII     2.760872194     0.54539057         88.372093
## Prymnesiophyceae            10.463101044     2.95566502        100.000000
## Pyramimonadaceae             0.201523518     0.28149191         53.488372
## Rhodophyceae                 0.016121881     0.12315271         16.279070
## Trebouxiophyceae             0.084639877     0.52779733         39.534884
## Ulvophyceae                  0.004030470     0.03518649          4.651163
## Xanthophyceae                0.008060941     0.07037298          9.302326
## other_Prasinophyceae         0.211599694     0.38705137         74.418605



Reads per class vs. OTUs per class:



Reads per class vs. samples in which they occurr:


PHOTOTROPHS


Absolute values

##                          reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae                    297            135                39
## Bolidophyceae                        136             21                36
## Chlorarachniophyceae                 109             14                28
## Chlorophyceae                         22             16                14
## Chrysophyceae                        610            133                42
## Cryptophyceae                        381             56                26
## Dictyochophyceae                     644             47                43
## Dinophyceae                         5441           1026                43
## Eustigmatophyceae                     96             21                36
## Mamiellophyceae                     3166             99                37
## Nephroselmidophyceae                  18              6                13
## Pavlovophyceae                        48              6                25
## Pelagophyceae                       2195             21                43
## Phaeophyceae                           1              1                 1
## Prasinophyceae_clade-IX               63             13                17
## Prasinophyceae_clade-VII            1370             31                38
## Prymnesiophyceae                    5192            168                43
## Pyramimonadaceae                     100             16                23
## Rhodophyceae                           8              7                 7
## Trebouxiophyceae                      42             30                17
## Ulvophyceae                            2              2                 2
## Xanthophyceae                          4              4                 4
## other_Prasinophyceae                 105             22                32


Relative values

##   reads_per_class    OTUs_per_class samples_per_class 
##           100.000           100.000          1416.279
##                          reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae            1.481296758     7.12401055         90.697674
## Bolidophyceae                0.678304239     1.10817942         83.720930
## Chlorarachniophyceae         0.543640898     0.73878628         65.116279
## Chlorophyceae                0.109725686     0.84432718         32.558140
## Chrysophyceae                3.042394015     7.01846966         97.674419
## Cryptophyceae                1.900249377     2.95514512         60.465116
## Dictyochophyceae             3.211970075     2.48021108        100.000000
## Dinophyceae                 27.137157107    54.14248021        100.000000
## Eustigmatophyceae            0.478802993     1.10817942         83.720930
## Mamiellophyceae             15.790523691     5.22427441         86.046512
## Nephroselmidophyceae         0.089775561     0.31662269         30.232558
## Pavlovophyceae               0.239401496     0.31662269         58.139535
## Pelagophyceae               10.947630923     1.10817942        100.000000
## Phaeophyceae                 0.004987531     0.05277045          2.325581
## Prasinophyceae_clade-IX      0.314214464     0.68601583         39.534884
## Prasinophyceae_clade-VII     6.832917706     1.63588391         88.372093
## Prymnesiophyceae            25.895261845     8.86543536        100.000000
## Pyramimonadaceae             0.498753117     0.84432718         53.488372
## Rhodophyceae                 0.039900249     0.36939314         16.279070
## Trebouxiophyceae             0.209476309     1.58311346         39.534884
## Ulvophyceae                  0.009975062     0.10554090          4.651163
## Xanthophyceae                0.019950125     0.21108179          9.302326
## other_Prasinophyceae         0.523690773     1.16094987         74.418605



Reads per class vs. OTUs per class:



Reads per class vs. samples in which they occurr:

1.6.2) Non-rarefied data


PHOTOTROPHS + HETEROTROPHS

No. of OTUs and reads of the rearefied dataset:

## [1] 8349
## [1] 223622

No. of OTUs and reads of phototrophic groups:

## [1] 2882
## [1] 100242

No. of OTUs and reads of non-phototrophic groups:

## [1] 5467
## [1] 123380


Absolute values

##                              reads_per_class OTUs_per_class
## Bacillariophyceae                       2664            374
## Bolidophyceae                            509             25
## Chlorarachniophyceae                     327             20
## Chlorophyceae                             79             45
## Chrysophyceae                           2824            240
## Cryptophyceae                           1922             95
## Dictyochophyceae                        2819             52
## Dinophyceae                            23637           1476
## Eustigmatophyceae                        359             27
## Heterotrophs                          123380           5467
## IncertaeSedis_Archaeplastida               1              1
## Mamiellophyceae                        15846            117
## Nephroselmidophyceae                      64              7
## Pavlovophyceae                           228             13
## Pelagophyceae                           9306             25
## Phaeophyceae                               5              4
## Phaeothamniophyceae                        1              1
## Prasinophyceae_clade-IX                  155             16
## Prasinophyceae_clade-VII                3575             37
## Prymnesiophyceae                       34758            177
## Pyramimonadaceae                         507             19
## Rhodophyceae                              16             12
## Trebouxiophyceae                         121             57
## Ulvophyceae                                6              5
## Xanthophyceae                             21             11
## other_Prasinophyceae                     492             26
##                              samples_per_class
## Bacillariophyceae                           42
## Bolidophyceae                               43
## Chlorarachniophyceae                        41
## Chlorophyceae                               26
## Chrysophyceae                               43
## Cryptophyceae                               39
## Dictyochophyceae                            43
## Dinophyceae                                 43
## Eustigmatophyceae                           42
## Heterotrophs                                43
## IncertaeSedis_Archaeplastida                 1
## Mamiellophyceae                             41
## Nephroselmidophyceae                        19
## Pavlovophyceae                              37
## Pelagophyceae                               43
## Phaeophyceae                                 4
## Phaeothamniophyceae                          1
## Prasinophyceae_clade-IX                     29
## Prasinophyceae_clade-VII                    42
## Prymnesiophyceae                            43
## Pyramimonadaceae                            33
## Rhodophyceae                                13
## Trebouxiophyceae                            26
## Ulvophyceae                                  3
## Xanthophyceae                               14
## other_Prasinophyceae                        41


Relative values

##   reads_per_class    OTUs_per_class samples_per_class 
##           100.000           100.000          1848.837
##                              reads_per_class OTUs_per_class
## Bacillariophyceae               1.191296e+00     4.47957839
## Bolidophyceae                   2.276162e-01     0.29943706
## Chlorarachniophyceae            1.462289e-01     0.23954965
## Chlorophyceae                   3.532747e-02     0.53898670
## Chrysophyceae                   1.262845e+00     2.87459576
## Cryptophyceae                   8.594861e-01     1.13786082
## Dictyochophyceae                1.260609e+00     0.62282908
## Dinophyceae                     1.057007e+01    17.67876392
## Eustigmatophyceae               1.605388e-01     0.32339202
## Heterotrophs                    5.517346e+01    65.48089592
## IncertaeSedis_Archaeplastida    4.471832e-04     0.01197748
## Mamiellophyceae                 7.086065e+00     1.40136543
## Nephroselmidophyceae            2.861972e-02     0.08384238
## Pavlovophyceae                  1.019578e-01     0.15570727
## Pelagophyceae                   4.161487e+00     0.29943706
## Phaeophyceae                    2.235916e-03     0.04790993
## Phaeothamniophyceae             4.471832e-04     0.01197748
## Prasinophyceae_clade-IX         6.931339e-02     0.19163972
## Prasinophyceae_clade-VII        1.598680e+00     0.44316685
## Prymnesiophyceae                1.554319e+01     2.12001437
## Pyramimonadaceae                2.267219e-01     0.22757216
## Rhodophyceae                    7.154931e-03     0.14372979
## Trebouxiophyceae                5.410917e-02     0.68271649
## Ulvophyceae                     2.683099e-03     0.05988741
## Xanthophyceae                   9.390847e-03     0.13175231
## other_Prasinophyceae            2.200141e-01     0.31141454
##                              samples_per_class
## Bacillariophyceae                    97.674419
## Bolidophyceae                       100.000000
## Chlorarachniophyceae                 95.348837
## Chlorophyceae                        60.465116
## Chrysophyceae                       100.000000
## Cryptophyceae                        90.697674
## Dictyochophyceae                    100.000000
## Dinophyceae                         100.000000
## Eustigmatophyceae                    97.674419
## Heterotrophs                        100.000000
## IncertaeSedis_Archaeplastida          2.325581
## Mamiellophyceae                      95.348837
## Nephroselmidophyceae                 44.186047
## Pavlovophyceae                       86.046512
## Pelagophyceae                       100.000000
## Phaeophyceae                          9.302326
## Phaeothamniophyceae                   2.325581
## Prasinophyceae_clade-IX              67.441860
## Prasinophyceae_clade-VII             97.674419
## Prymnesiophyceae                    100.000000
## Pyramimonadaceae                     76.744186
## Rhodophyceae                         30.232558
## Trebouxiophyceae                     60.465116
## Ulvophyceae                           6.976744
## Xanthophyceae                        32.558140
## other_Prasinophyceae                 95.348837



Reads per class vs. OTUs per class:



Reads per class vs. samples in which they occurr:


PHOTOTROPHS


Absolute values

##                              reads_per_class OTUs_per_class
## Bacillariophyceae                       2664            374
## Bolidophyceae                            509             25
## Chlorarachniophyceae                     327             20
## Chlorophyceae                             79             45
## Chrysophyceae                           2824            240
## Cryptophyceae                           1922             95
## Dictyochophyceae                        2819             52
## Dinophyceae                            23637           1476
## Eustigmatophyceae                        359             27
## IncertaeSedis_Archaeplastida               1              1
## Mamiellophyceae                        15846            117
## Nephroselmidophyceae                      64              7
## Pavlovophyceae                           228             13
## Pelagophyceae                           9306             25
## Phaeophyceae                               5              4
## Phaeothamniophyceae                        1              1
## Prasinophyceae_clade-IX                  155             16
## Prasinophyceae_clade-VII                3575             37
## Prymnesiophyceae                       34758            177
## Pyramimonadaceae                         507             19
## Rhodophyceae                              16             12
## Trebouxiophyceae                         121             57
## Ulvophyceae                                6              5
## Xanthophyceae                             21             11
## other_Prasinophyceae                     492             26
##                              samples_per_class
## Bacillariophyceae                           42
## Bolidophyceae                               43
## Chlorarachniophyceae                        41
## Chlorophyceae                               26
## Chrysophyceae                               43
## Cryptophyceae                               39
## Dictyochophyceae                            43
## Dinophyceae                                 43
## Eustigmatophyceae                           42
## IncertaeSedis_Archaeplastida                 1
## Mamiellophyceae                             41
## Nephroselmidophyceae                        19
## Pavlovophyceae                              37
## Pelagophyceae                               43
## Phaeophyceae                                 4
## Phaeothamniophyceae                          1
## Prasinophyceae_clade-IX                     29
## Prasinophyceae_clade-VII                    42
## Prymnesiophyceae                            43
## Pyramimonadaceae                            33
## Rhodophyceae                                13
## Trebouxiophyceae                            26
## Ulvophyceae                                  3
## Xanthophyceae                               14
## other_Prasinophyceae                        41


Relative values

##   reads_per_class    OTUs_per_class samples_per_class 
##           100.000           100.000          1748.837
##                              reads_per_class OTUs_per_class
## Bacillariophyceae               2.657569e+00    12.97709924
## Bolidophyceae                   5.077712e-01     0.86745316
## Chlorarachniophyceae            3.262106e-01     0.69396253
## Chlorophyceae                   7.880928e-02     1.56141568
## Chrysophyceae                   2.817182e+00     8.32755031
## Cryptophyceae                   1.917360e+00     3.29632200
## Dictyochophyceae                2.812194e+00     1.80430257
## Dinophyceae                     2.357994e+01    51.21443442
## Eustigmatophyceae               3.581333e-01     0.93684941
## IncertaeSedis_Archaeplastida    9.975858e-04     0.03469813
## Mamiellophyceae                 1.580775e+01     4.05968078
## Nephroselmidophyceae            6.384549e-02     0.24288688
## Pavlovophyceae                  2.274496e-01     0.45107564
## Pelagophyceae                   9.283534e+00     0.86745316
## Phaeophyceae                    4.987929e-03     0.13879251
## Phaeothamniophyceae             9.975858e-04     0.03469813
## Prasinophyceae_clade-IX         1.546258e-01     0.55517002
## Prasinophyceae_clade-VII        3.566369e+00     1.28383067
## Prymnesiophyceae                3.467409e+01     6.14156836
## Pyramimonadaceae                5.057760e-01     0.65926440
## Rhodophyceae                    1.596137e-02     0.41637752
## Trebouxiophyceae                1.207079e-01     1.97779320
## Ulvophyceae                     5.985515e-03     0.17349063
## Xanthophyceae                   2.094930e-02     0.38167939
## other_Prasinophyceae            4.908122e-01     0.90215128
##                              samples_per_class
## Bacillariophyceae                    97.674419
## Bolidophyceae                       100.000000
## Chlorarachniophyceae                 95.348837
## Chlorophyceae                        60.465116
## Chrysophyceae                       100.000000
## Cryptophyceae                        90.697674
## Dictyochophyceae                    100.000000
## Dinophyceae                         100.000000
## Eustigmatophyceae                    97.674419
## IncertaeSedis_Archaeplastida          2.325581
## Mamiellophyceae                      95.348837
## Nephroselmidophyceae                 44.186047
## Pavlovophyceae                       86.046512
## Pelagophyceae                       100.000000
## Phaeophyceae                          9.302326
## Phaeothamniophyceae                   2.325581
## Prasinophyceae_clade-IX              67.441860
## Prasinophyceae_clade-VII             97.674419
## Prymnesiophyceae                    100.000000
## Pyramimonadaceae                     76.744186
## Rhodophyceae                         30.232558
## Trebouxiophyceae                     60.465116
## Ulvophyceae                           6.976744
## Xanthophyceae                        32.558140
## other_Prasinophyceae                 95.348837



Reads per class vs. OTUs per class:



Reads per class vs. samples in which they occurr:





2) 16S amplicons

2.1) Data overview

The dataset “Taraspina 16S miTags” contains reads from 45 samples of Tara Oceans and from 10 samples of Malaspina. On average, each sample contains 77920 OTUs:

##    Min. 1st Qu.  Median    Mean 3rd Qu.    Max. 
##   13690   50950   83020   77920  100900  158900


Overall reads per sample:

2.2) Normalization


In order to keep as many samples as possible, we rarefy at 36155 reads per sample. By that, we loose 10 samples, and after removing the exluded samples in the 18S dataset (to make them comparable), we end up with a normalized dataset containing 43 samples and 24691 OTUs.


Datasets summary:

dim(tb16_tax) #original dataset
## [1] 28294    58
dim(tb16_tax_occur) #original dataset with occurrence data alone
## [1] 28294    55
dim(tb16_tax_occur_min36155) #dataset without samples with less than 36155 OTUs
## [1] 24691    43
dim(tb16_tax_occur_ss36155_no_cero) #rarefied dataset
## [1]    43 19726

2.3) General community analysis

2.3.1) Richness and evenness (Shannon index)

Most of the samples take Shannon Index values around 6:

2.3.2) Richness: OTU number

Lowest number of OTUs per sample:

## [1] 2503

Maximum number of OTUs per sample:

## [1] 5092

In most of the samples, we can identify around 4000 OTUs:

2.3.3) Index of evenness

2.3.3.1) Pielou’s index

The Pielou index (constrained between 0 and 1) takes values closer to 1 as the variation of species proportion in a sample increases. Most of the samples get values around 0.85, meaning that the numerical composition of different OTUs in a sample is highly variable - there’s no constant presence of dominant species.

Most of the OTUs show very few occurrences, suggesting that we will probably be able to identify a significant ammount of rare otus:

2.3.4) Abundance Models

2.3.4.1) Rank-Abundance or Dominance/Diversity Model (“radfit”)

The OTUs abundance distribution fits relativelly close to log-normal model.

2.3.4.2) Preston’s Lognormal Model

According to Preston’s lognormal model fit into species frequencies groups, we’re missing 83761.1 species:

## Extrapolated     Observed       Veiled 
##     108452.1      24691.0      83761.1


When computing Prestons’ lognormal model fit without pooling data into groups, we seem to miss 50576.64 species:

## Extrapolated     Observed       Veiled 
##     75267.64     24691.00     50576.64

2.3.5) Rarefaction curves of rarefied and non-rarefied datasets

2.3.6) Beta diversity

2.3.6.1) Dissimilarity matrix using Bray-Curtis index:

The Bray-Curtis dissimilarity, constrained between 0 (minimum distance) and 1 (highest dissimilarity) allows us to quantify the differences between samples according to the composition and relative abundance of their OTUs. In our dataset, most of the samples pairs take dissimilarity values around 0.5, meaning that their composition is substantially different.

2.3.6.2) Hierarchical clustering

The stations seem to form clusters according to geographic localization, but there are no evident clusters separated from the general groups, apart from the one containing TARA_84, TARA_82 and TARA_85.

(To be done: assign Longhurst provinces information to each station and check if any of the central clusters is meaningful regarding to the samples’ geographical location)

2.3.6.3) Non-metric multidimensional scaling

We can identify an evident division between the stations close to Southern Ocean (TARA 82, 84 and 85) and the rest of the samples. The stress parameter takes a value below 0.2, suggesting that the plot is acceptable.

## 
## Call:
## monoMDS(dist = tb16_tax_occur_ss36155_no_cero.bray) 
## 
## Non-metric Multidimensional Scaling
## 
## 43 points, dissimilarity 'bray', call 'vegdist(x = tb16_tax_occur_ss36155_no_cero, method = "bray")'
## 
## Dimensions: 2 
## Stress:     9.41416e-05 
## Stress type 1, weak ties
## Scores scaled to unit root mean square, rotated to principal components
## Stopped after 69 iterations: Stress nearly zero (< smin)

When implementing a most robut function for computing NMDS plots, the result is quiet the same:

2.4) Geographical analysis

Communities quickly change their composition across geographical distances:

2.4.1) Mantel correlograms

Mantel statistic is -significantlly- so low, meaning that the correlation between samples dissimilarity and geographical distances is weak.

## 
## Mantel statistic based on Pearson's product-moment correlation 
## 
## Call:
## mantel(xdis = geo_distances_MP_16S, ydis = tb16_tax_occur_ss36155_no_cero.bray) 
## 
## Mantel statistic r: 0.02882 
##       Significance: 0.278 
## 
## Upper quantiles of permutations (null model):
##    90%    95%  97.5%    99% 
## 0.0794 0.1105 0.1462 0.1687 
## Permutation: free
## Number of permutations: 999

Correlograms:

MP_16s_ss36155_mantel_correl_by_1000km<-mantel.correlog(tb16_tax_occur_ss36155_no_cero.bray, D.geo=geo_distances_MP_16S, break.pts=seq(0,20000, by=1000))
plot(MP_16s_ss36155_mantel_correl_by_1000km)

MP_16s_ss36155_mantel_correl_by_100km<-mantel.correlog(tb16_tax_occur_ss36155_no_cero.bray, D.geo=geo_distances_MP_16S, break.pts=seq(0,20000, by=100))
plot(MP_16s_ss36155_mantel_correl_by_100km)

2.5) Abundance vs. occurence

OTUs distribution according to their percentage of occurence and relative abundance.
- red line: OTUs that occur in more than 80% of the samples.
- blue line: regionally abundant OTUs (> 0.1%).
- green line: regionally rare OTUs (< 0.001%).

Regionally abundant OTUs (relative abundance over 0.1%):

##     otu_names mean_rabund perc_occur          class_B
## 6    OTU_1754 0.011012662   93.02326  Prochlorococcus
## 25   OTU_2893 0.008765876   93.02326   other_bacteria
## 135   OTU_761 0.008455198   93.02326  Prochlorococcus
## 10   OTU_2428 0.007725137   93.02326   other_bacteria
## 46   OTU_3736 0.007143661   90.69767  Prochlorococcus
## 7    OTU_1942 0.006589201   93.02326  Prochlorococcus
## 11   OTU_2466 0.006459913   93.02326  Prochlorococcus
## 38   OTU_3271 0.005548462   90.69767  Prochlorococcus
## 69   OTU_5398 0.005484140   90.69767  Prochlorococcus
## 66   OTU_5330 0.004975992   93.02326  Prochlorococcus
## 16  OTU_27927 0.003864498   48.83721  Mamiellophyceae
## 67   OTU_5352 0.003861282   55.81395   other_bacteria
## 32   OTU_3187 0.003603992  100.00000   other_bacteria
## 14  OTU_27901 0.003573760   86.04651 Prymnesiophyceae
## 23   OTU_2866 0.003493357   93.02326   other_bacteria
## 125  OTU_6083 0.003113211   86.04651    Synechococcus
## 137  OTU_8011 0.003112568   86.04651   other_bacteria
## 130   OTU_635 0.003076547   93.02326   other_bacteria
## 131   OTU_709 0.002999360   93.02326   other_bacteria
## 30   OTU_3172 0.002929892   86.04651   other_bacteria
## 40   OTU_3311 0.002813468   93.02326  Prochlorococcus
## 99   OTU_5727 0.002681607   93.02326   other_bacteria
## 37   OTU_3259 0.002622430   60.46512   other_bacteria
## 26     OTU_29 0.002468056  100.00000   other_bacteria
## 77   OTU_5447 0.002439111  100.00000   other_bacteria
## 13  OTU_27900 0.002411452  100.00000 Prymnesiophyceae
## 29   OTU_3162 0.002374788   95.34884   other_bacteria
## 51   OTU_4048 0.002309822  100.00000   other_bacteria
## 70   OTU_5403 0.002296315   90.69767   other_bacteria
## 74   OTU_5432 0.002243570   93.02326   other_bacteria
## 90   OTU_5633 0.002224917   95.34884   other_bacteria
## 3    OTU_1329 0.002220414   93.02326   other_bacteria
## 75   OTU_5441 0.002144513   95.34884   other_bacteria
## 22  OTU_28061 0.002136152   53.48837  Mamiellophyceae
## 27   OTU_3004 0.002114282   93.02326   other_bacteria
## 128  OTU_6164 0.002097558   93.02326   other_bacteria
## 24   OTU_2877 0.002078261   95.34884   other_bacteria
## 140  OTU_8163 0.002048030  100.00000   other_bacteria
## 39   OTU_3308 0.002037095   97.67442    Synechococcus
## 116  OTU_5961 0.002023587  100.00000   other_bacteria
## 4    OTU_1676 0.002010079   88.37209  Prochlorococcus
## 91   OTU_5635 0.002004290  100.00000   other_bacteria
## 5    OTU_1738 0.001992712   93.02326   other_bacteria
## 119  OTU_5978 0.001988853  100.00000   other_bacteria
## 28   OTU_3023 0.001945757   93.02326   other_bacteria
## 139  OTU_8153 0.001932249   93.02326   other_bacteria
## 124  OTU_6067 0.001862138  100.00000   other_bacteria
## 103  OTU_5772 0.001851203  100.00000   other_bacteria
## 102  OTU_5752 0.001832549   93.02326  Prochlorococcus
## 15  OTU_27912 0.001810036   37.20930 Prymnesiophyceae
## 33   OTU_3197 0.001805534   83.72093   other_bacteria
## 64   OTU_5301 0.001798458   95.34884   other_bacteria
## 49   OTU_3810 0.001779161   90.69767   other_bacteria
## 93   OTU_5653 0.001776589   93.02326   other_bacteria
## 36   OTU_3240 0.001768227   93.02326   other_bacteria
## 54   OTU_4560 0.001750216  100.00000   other_bacteria
## 55   OTU_4664 0.001741854  100.00000   other_bacteria
## 53   OTU_4366 0.001713552  100.00000   other_bacteria
## 111  OTU_5879 0.001704547   93.02326   other_bacteria
## 56   OTU_4926 0.001692326   95.34884   other_bacteria
## 44   OTU_3680 0.001641511  100.00000   other_bacteria
## 17  OTU_27934 0.001637009   95.34884 Prymnesiophyceae
## 42    OTU_333 0.001620285  100.00000   other_bacteria
## 145  OTU_9255 0.001613209   83.72093    Synechococcus
## 65   OTU_5327 0.001557892   93.02326   other_bacteria
## 57   OTU_4991 0.001542454   97.67442   other_bacteria
## 72    OTU_542 0.001507720   93.02326   other_bacteria
## 127  OTU_6155 0.001501288  100.00000   other_bacteria
## 88   OTU_5607 0.001487137   93.02326   other_bacteria
## 136  OTU_7987 0.001462051  100.00000   other_bacteria
## 45   OTU_3731 0.001457549   97.67442   other_bacteria
## 9      OTU_23 0.001426674   93.02326   other_bacteria
## 98   OTU_5691 0.001422815   93.02326   other_bacteria
## 34   OTU_3198 0.001422171   97.67442   other_bacteria
## 121  OTU_5985 0.001413166  100.00000   other_bacteria
## 106  OTU_5804 0.001411880   93.02326   other_bacteria
## 94   OTU_5662 0.001399015   90.69767   other_bacteria
## 18  OTU_27938 0.001382291   90.69767    Pelagophyceae
## 117  OTU_5968 0.001375859  100.00000   other_bacteria
## 141  OTU_8367 0.001374573  100.00000   other_bacteria
## 95   OTU_5665 0.001373929   93.02326   other_bacteria
## 100  OTU_5741 0.001367497  100.00000   other_bacteria
## 92   OTU_5651 0.001365568   93.02326   other_bacteria
## 50   OTU_4036 0.001363638   97.67442   other_bacteria
## 48   OTU_3803 0.001359135  100.00000   other_bacteria
## 114  OTU_5925 0.001358492   88.37209   other_bacteria
## 96   OTU_5667 0.001355919   93.02326   other_bacteria
## 82   OTU_5500 0.001351417  100.00000   other_bacteria
## 101  OTU_5742 0.001345628   93.02326   other_bacteria
## 86   OTU_5564 0.001339838   93.02326   other_bacteria
## 132  OTU_7407 0.001337909   90.69767   other_bacteria
## 113  OTU_5911 0.001327617  100.00000   other_bacteria
## 115  OTU_5942 0.001323758  100.00000   other_bacteria
## 144  OTU_8458 0.001319898  100.00000   other_bacteria
## 126  OTU_6102 0.001308320   93.02326   other_bacteria
## 43   OTU_3347 0.001303175   97.67442   other_bacteria
## 41   OTU_3326 0.001297386   93.02326   other_bacteria
## 110  OTU_5823 0.001294813   93.02326   other_bacteria
## 79   OTU_5491 0.001278089  100.00000   other_bacteria
## 89   OTU_5624 0.001275516   95.34884   other_bacteria
## 83   OTU_5511 0.001268440   93.02326   other_bacteria
## 80   OTU_5493 0.001247214   95.34884   other_bacteria
## 62   OTU_5268 0.001246571  100.00000   other_bacteria
## 76   OTU_5445 0.001245928  100.00000   other_bacteria
## 84   OTU_5519 0.001242711   53.48837   other_bacteria
## 20  OTU_28046 0.001227274   51.16279  Mamiellophyceae
## 61   OTU_5266 0.001225988   93.02326   other_bacteria
## 19  OTU_28017 0.001220842   76.74419    Pelagophyceae
## 87   OTU_5586 0.001216982   95.34884   other_bacteria
## 35   OTU_3214 0.001211193   93.02326   other_bacteria
## 85   OTU_5523 0.001203475  100.00000   other_bacteria
## 104  OTU_5786 0.001200259   86.04651    Synechococcus
## 138  OTU_8146 0.001189324  100.00000   other_bacteria
## 112  OTU_5880 0.001187394   93.02326   other_bacteria
## 78   OTU_5449 0.001184821   93.02326   other_bacteria
## 71   OTU_5414 0.001180962   97.67442   other_bacteria
## 129  OTU_6193 0.001177746  100.00000   other_bacteria
## 142  OTU_8377 0.001172600  100.00000   other_bacteria
## 68   OTU_5355 0.001166811  100.00000   other_bacteria
## 63   OTU_5288 0.001166811   88.37209  Prochlorococcus
## 133  OTU_7455 0.001155233  100.00000   other_bacteria
## 118  OTU_5976 0.001137866   95.34884   other_bacteria
## 146  OTU_9267 0.001118569   83.72093    Synechococcus
## 109  OTU_5821 0.001115996   93.02326   other_bacteria
## 147   OTU_934 0.001105704  100.00000   other_bacteria
## 120  OTU_5982 0.001101845   93.02326   other_bacteria
## 60   OTU_5222 0.001100559   88.37209   other_bacteria
## 123  OTU_6047 0.001096056  100.00000   other_bacteria
## 2   OTU_12129 0.001079975   55.81395    Synechococcus
## 1   OTU_10747 0.001077403   58.13953   other_bacteria
## 143  OTU_8436 0.001076116  100.00000   other_bacteria
## 47   OTU_3789 0.001072257  100.00000   other_bacteria
## 81   OTU_5499 0.001065181   93.02326   other_bacteria
## 59   OTU_5211 0.001064538   97.67442   other_bacteria
## 73   OTU_5428 0.001061322  100.00000   other_bacteria
## 52   OTU_4083 0.001056176   95.34884   other_bacteria
## 134   OTU_759 0.001045241   83.72093    Synechococcus
## 58    OTU_520 0.001040095   93.02326   other_bacteria
## 12   OTU_2789 0.001038809   97.67442   other_bacteria
## 122  OTU_5988 0.001034950   93.02326   other_bacteria
## 97   OTU_5679 0.001029161   93.02326   other_bacteria
## 108  OTU_5817 0.001028517   97.67442   other_bacteria
## 31   OTU_3173 0.001018869   76.74419   other_bacteria
## 21  OTU_28060 0.001018869   41.86047  Mamiellophyceae
## 105  OTU_5800 0.001017583   93.02326   other_bacteria
## 107  OTU_5815 0.001009221  100.00000   other_bacteria
## 8     OTU_223 0.001009221   90.69767   other_bacteria
##                                                                                                                                                                                     OTUId
## 6                                                        CyanoDB_EU802275.1.1357_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 25                                                SILVA.v123_EU803059.1.1291_Bacteria;Proteobacteria;Gammaproteobacteria;Cellvibrionales;Halieaceae;OM60_NOR5__clade;uncultured_bacterium
## 135                                                      CyanoDB_EU237319.1.1311_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 10                                                              SILVA.v123_EU802338.1.1516_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 46                                                       CyanoDB_EU802420.1.1442_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 7                                                        CyanoDB_EU802966.1.1361_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 11                                                       CyanoDB_EU802290.1.1454_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 38                                                   CyanoDB_AY664090.1.1205_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_Prochlorococcus
## 69                                                         CyanoDB_X52169.1.1473_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 66                                                       CyanoDB_JX945341.1.1455_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 16                  PhytoREF_3777_AACY020416011_Eukaryota_Archaeplastida_Chlorophyta_Mamiellophyceae_Mamiellophyceae_X_Mamiellales_Mamiellales_X_Bathycoccaceae_Ostreococcus_Ostreococcus
## 67                                                         SILVA.v123_AACY020549891.3846.5359_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;marine_metagenome
## 32                                                                      SILVA.v123_EU802563.1.1450_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 14                          PhytoREF_3719_KC900889_Eukaryota_Hacrobia_Haptophyta_Prymnesiophyceae_Prymnesiophyceae_X_Phaeocystales_Phaeocystales_X_Phaeocystaceae_Phaeocystis_Phaeocystis
## 23                                                              SILVA.v123_EF572179.1.1472_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 125                                                        CyanoDB_GU119298.1.1407_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium
## 137                                 SILVA.v123_DQ906760.1.1497_Bacteria;Proteobacteria;Gammaproteobacteria;Arenicellales;Arenicellaceae;Arenicella;uncultured_Antarctic_sea_ice_bacterium
## 130                                SILVA.v123_EF573150.1.1450_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 131                                SILVA.v123_GU940917.1.1359_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 30                                                         SILVA.v123_AACY020481938.3418.4929_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;marine_metagenome
## 40                                                       CyanoDB_EU804864.1.1440_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 99                                                                                SILVA.v123_EU802915.1.1434_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;uncultured_bacterium
## 37                                                       SILVA.v123_DQ009141.1.1996_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_marine_bacterium
## 26                                                                      SILVA.v123_EU802811.1.1440_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 77                                                                      SILVA.v123_EU804325.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 13            PhytoREF_4979_AB199885_Eukaryota_Hacrobia_Haptophyta_Prymnesiophyceae_Prymnesiophyceae_X_Prymnesiales_Prymnesiales_X_Chrysochromulinaceae_Chrysochromulina_Chrysochromulina
## 29                                                       SILVA.v123_FJ825908.1.1508_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_marine_bacterium
## 51                                                                      SILVA.v123_EF572460.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 70                                                                 SILVA.v123_EU802502.1.1451_Bacteria;Proteobacteria;Alphaproteobacteria;Rickettsiales;SAR116_clade;uncultured_bacterium
## 74                                                                                                 SILVA.v123_EF574089.1.1525_Bacteria;Marinimicrobia__SAR406_clade_;uncultured_bacterium
## 90                               SILVA.v123_FN433431.1.1496_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS5_marine_group;uncultured_Flavobacteriia_bacterium
## 3                                                 SILVA.v123_EU803046.1.1424_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae;uncultured;uncultured_bacterium
## 75                             SILVA.v123_AACY024102418.157.1623_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;marine_metagenome
## 22                             PhytoREF_3323_FN563098_Eukaryota_Archaeplastida_Chlorophyta_Mamiellophyceae_Mamiellophyceae_X_Mamiellales_Mamiellales_X_Mamiellaceae_Micromonas_Micromonas
## 27                                                                                                 SILVA.v123_EF574411.1.1527_Bacteria;Marinimicrobia__SAR406_clade_;uncultured_bacterium
## 128                                                             SILVA.v123_EF572431.1.1517_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 24                     SILVA.v123_EU394547.1.1451_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_alpha_proteobacterium
## 140                                                         SILVA.v123_EU050769.1.1397_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_alpha_proteobacterium
## 39                                                         CyanoDB_HQ672155.1.1438_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium
## 116                                                                     SILVA.v123_JX016743.1.1433_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 4                                                        CyanoDB_EU802429.1.1451_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 91                                                                      SILVA.v123_EU800179.1.1374_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 5                                               SILVA.v123_EU802529.1.1481_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 119                                                                     SILVA.v123_EU802612.1.1434_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 28                                                            SILVA.v123_AACY023939069.20.1514_Bacteria;Proteobacteria;Deltaproteobacteria;SAR324_clade_Marine_group_B_;marine_metagenome
## 139                                        SILVA.v123_AACY020396101.1882.3388_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;marine_metagenome
## 124                                                                               SILVA.v123_EU802929.1.1358_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;uncultured_bacterium
## 103                                             SILVA.v123_EF574626.1.1492_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS4_marine_group;uncultured_bacterium
## 102                                       CyanoDB_AE017126.353331.354795_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_Prochlorococcus_Prochlorococcus_marinus
## 15  PhytoREF_5417_AB847985_Eukaryota_Hacrobia_Haptophyta_Prymnesiophyceae_Prymnesiophyceae_X_Prymnesiophyceae_XX_Prymnesiophyceae_XXX_Braarudosphaeraceae_Braarudosphaera_Braarudosphaera
## 33                                                                           SILVA.v123_AACY020443682.520.1932_Bacteria;Proteobacteria;Alphaproteobacteria;OCS116_clade;marine_metagenome
## 64                                                              SILVA.v123_EF575083.1.1498_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 49                                                SILVA.v123_EF575067.1.1452_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae;uncultured;uncultured_bacterium
## 93                                                              SILVA.v123_EU805216.1.1503_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 36                                              SILVA.v123_GU940823.1.1357_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 54                                                                      SILVA.v123_EF573299.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 55                                                                      SILVA.v123_GU061507.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 53                                                               SILVA.v123_FR684404.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 111                                             SILVA.v123_EF574657.1.1483_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS4_marine_group;uncultured_bacterium
## 56                                                                      SILVA.v123_EU802923.1.1453_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_4;uncultured_bacterium
## 44                                                                      SILVA.v123_GQ351167.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 17                                    PhytoREF_155_Eukaryota_Hacrobia_Haptophyta_Prymnesiophyceae_Prymnesiophyceae_X_Phaeocystales_Phaeocystales_X_Phaeocystaceae_Phaeocystis_Phaeocystis
## 42                                                                      SILVA.v123_AF382134.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 145                                                    CyanoDB_AY664003.1.1207_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_Synechococcus
## 65                                                              SILVA.v123_EU802682.1.1495_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 57                                                SILVA.v123_EU803186.1.1437_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae;uncultured;uncultured_bacterium
## 72                                              SILVA.v123_EF575137.1.1492_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS4_marine_group;uncultured_bacterium
## 127                                                                     SILVA.v123_HQ671926.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 88                                SILVA.v123_AY033296.1.1499_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_actinobacterium_MB11A03
## 136                                                                     SILVA.v123_EU803121.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 45                                            SILVA.v123_HQ242370.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_SAR11_cluster_alpha_proteobacterium
## 9                                  SILVA.v123_JQ611213.1.1323_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 98                                        SILVA.v123_JQ516699.1.1498_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_actinobacterium
## 34                                                                                SILVA.v123_EU802480.1.1262_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;uncultured_bacterium
## 121                                                             SILVA.v123_AY700640.1.1494_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 106                                     SILVA.v123_DQ009111.1.2063_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS2b_marine_group;uncultured_marine_bacterium
## 94                                                          SILVA.v123_EF575061.1.1479_Bacteria;Bacteroidetes;Cytophagia;Cytophagales;Flammeovirgaceae;Marinoscillum;uncultured_bacterium
## 18                    PhytoREF_2512_NC_012898_Eukaryota_Stramenopiles_Ochrophyta_Pelagophyceae_Pelagophyceae_X_Pelagomonadales_Pelagomonadales_X_Pelagomonadaceae_Aureococcus_Aureococcus
## 117                                                                     SILVA.v123_JN976625.1.1411_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 141                                                                     SILVA.v123_KF799972.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 95                                                                      SILVA.v123_JN985907.1.1452_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_4;uncultured_bacterium
## 100                                                              SILVA.v123_FR683897.1.1434_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 92                                              SILVA.v123_JQ516679.1.1511_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 50                                                                      SILVA.v123_EU802672.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 48                                                                      SILVA.v123_EU800456.1.1443_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 114                                                             SILVA.v123_EF572710.1.1498_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 96                                 SILVA.v123_KC872791.1.1339_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 82                                                                      SILVA.v123_EU801782.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 101                                                                     SILVA.v123_EF572670.1.1440_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_4;uncultured_bacterium
## 86                                                              SILVA.v123_EU802819.1.1500_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 132                                                                                                SILVA.v123_EF572465.1.1526_Bacteria;Marinimicrobia__SAR406_clade_;uncultured_bacterium
## 113                                                                     SILVA.v123_EU805108.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 115                                                                     SILVA.v123_EU805259.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 144                                      SILVA.v123_FR686262.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;Candidatus_Pelagibacter;uncultured_marine_bacterium
## 126                               SILVA.v123_AF406543.1.1404_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_Gram_positive_bacterium
## 43                                                                      SILVA.v123_EU803155.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 41                                                                      SILVA.v123_EU802374.1.1489_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;uncultured_bacterium
## 110                                                             SILVA.v123_EU803095.1.1260_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 79                                                                      SILVA.v123_EU804185.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 89                                 SILVA.v123_KC872373.1.1325_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 83                                                          SILVA.v123_AACY020563509.792.2305_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;marine_metagenome
## 80                                                                      SILVA.v123_KC873625.1.1348_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 62                                                                  SILVA.v123_AACY023928123.190.1644_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;marine_metagenome
## 76                                                              SILVA.v123_EF574603.1.1499_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 84                                                              SILVA.v123_EF573190.1.1498_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 20                         PhytoREF_4604_FN563099_Eukaryota_Archaeplastida_Chlorophyta_Mamiellophyceae_Mamiellophyceae_X_Mamiellales_Mamiellales_X_Bathycoccaceae_Bathycoccus_Bathycoccus
## 61                                              SILVA.v123_EF572435.1.1502_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS5_marine_group;uncultured_bacterium
## 19                               PhytoREF_395_Eukaryota_Stramenopiles_Ochrophyta_Pelagophyceae_Pelagophyceae_X_Pelagomonadales_Pelagomonadales_X_Pelagomonadaceae_Pelagomonas_Pelagomonas
## 87                                                               SILVA.v123_EU802302.1.1503_Bacteria;Proteobacteria;Deltaproteobacteria;SAR324_clade_Marine_group_B_;uncultured_bacterium
## 35                                 SILVA.v123_JX945338.1.1456_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 85                                                               SILVA.v123_FR684943.1.1434_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 104                                                          CyanoDB_X52171.1.1477_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium
## 138                                             SILVA.v123_EU259796.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;Candidatus_Pelagibacter;uncultured_bacterium
## 112                                                             SILVA.v123_EU802956.1.1452_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 78                                 SILVA.v123_EU801696.1.1459_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 71                                                                      SILVA.v123_EU802363.1.1438_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 129                                                              SILVA.v123_JN233419.1.1394_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 142                                                              SILVA.v123_FR686065.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 68                                              SILVA.v123_EU804555.1.1438_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;Candidatus_Pelagibacter;uncultured_bacterium
## 63                                                       CyanoDB_EU802498.1.1435_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 133                                             SILVA.v123_EU801950.1.1450_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;Candidatus_Pelagibacter;uncultured_bacterium
## 118                                         SILVA.v123_AACY020555729.127.1634_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS4_marine_group;marine_metagenome
## 146                                                            CyanoDB_AJ639901.1.1481_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_Aphanothece_Aphanothece_sp.
## 109                                SILVA.v123_KC873462.1.1334_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 147                                                              SILVA.v123_FR684827.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 120                    SILVA.v123_JQ515581.1.1452_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_alpha_proteobacterium
## 60                          SILVA.v123_DQ009261.1.1979_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_marine_bacterium
## 123                                                                     SILVA.v123_AY907723.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 2                                                          CyanoDB_JQ062633.1.1427_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium
## 1                                  SILVA.v123_AACY020565564.130.1652_Bacteria;Proteobacteria;Gammaproteobacteria;Salinisphaerales;Salinisphaeraceae;ZD0417_marine_group;marine_metagenome
## 143                                                                     SILVA.v123_FJ744886.1.1319_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 47                                                                      SILVA.v123_EU803119.1.1440_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 81                                                SILVA.v123_EF573001.1.1489_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;Sufflavibacter;uncultured_bacterium
## 59                                             SILVA.v123_JN986566.1.1485_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS2b_marine_group;uncultured_bacterium
## 73                                                                      SILVA.v123_GU940923.1.1380_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 52                              SILVA.v123_FN433299.1.1479_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS2b_marine_group;uncultured_Flavobacteriia_bacterium
## 134                                                        CyanoDB_HQ672048.1.1451_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium
## 58                                 SILVA.v123_KC294916.1.1411_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 12                                                                      SILVA.v123_EU802269.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 122                                                                     SILVA.v123_KC294834.1.1413_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_4;uncultured_bacterium
## 97                                              SILVA.v123_EU802614.1.1337_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 108                                                                     SILVA.v123_EU805301.1.1438_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 31                                              SILVA.v123_GU235015.1.1323_Bacteria;Lentisphaerae;Lentisphaeria;Lentisphaerales;Lentisphaeraceae;Lentisphaera;uncultured_marine_bacterium
## 21                                       PhytoREF_765_Eukaryota_Archaeplastida_Chlorophyta_Mamiellophyceae_Mamiellophyceae_X_Mamiellales_Mamiellales_X_Mamiellaceae_Micromonas_Micromonas
## 105                                             SILVA.v123_EU237342.1.1352_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 107                                                              SILVA.v123_FR685223.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 8                                                 SILVA.v123_EF574498.1.1440_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae;uncultured;uncultured_bacterium

Number and roportion of regionally abundant OTUs (%):

## [1] 147
## [1] 0.7452094

Cosmopolitan OTUs (relative abundance over 0.1% and occurence in more than 80% of samples):

##     otu_names mean_rabund perc_occur          class_B
## 23   OTU_3187 0.003603992  100.00000   other_bacteria
## 18     OTU_29 0.002468056  100.00000   other_bacteria
## 66   OTU_5447 0.002439111  100.00000   other_bacteria
## 11  OTU_27900 0.002411452  100.00000 Prymnesiophyceae
## 41   OTU_4048 0.002309822  100.00000   other_bacteria
## 128  OTU_8163 0.002048030  100.00000   other_bacteria
## 104  OTU_5961 0.002023587  100.00000   other_bacteria
## 79   OTU_5635 0.002004290  100.00000   other_bacteria
## 107  OTU_5978 0.001988853  100.00000   other_bacteria
## 112  OTU_6067 0.001862138  100.00000   other_bacteria
## 91   OTU_5772 0.001851203  100.00000   other_bacteria
## 44   OTU_4560 0.001750216  100.00000   other_bacteria
## 45   OTU_4664 0.001741854  100.00000   other_bacteria
## 43   OTU_4366 0.001713552  100.00000   other_bacteria
## 34   OTU_3680 0.001641511  100.00000   other_bacteria
## 32    OTU_333 0.001620285  100.00000   other_bacteria
## 115  OTU_6155 0.001501288  100.00000   other_bacteria
## 124  OTU_7987 0.001462051  100.00000   other_bacteria
## 109  OTU_5985 0.001413166  100.00000   other_bacteria
## 105  OTU_5968 0.001375859  100.00000   other_bacteria
## 129  OTU_8367 0.001374573  100.00000   other_bacteria
## 88   OTU_5741 0.001367497  100.00000   other_bacteria
## 38   OTU_3803 0.001359135  100.00000   other_bacteria
## 71   OTU_5500 0.001351417  100.00000   other_bacteria
## 101  OTU_5911 0.001327617  100.00000   other_bacteria
## 103  OTU_5942 0.001323758  100.00000   other_bacteria
## 132  OTU_8458 0.001319898  100.00000   other_bacteria
## 68   OTU_5491 0.001278089  100.00000   other_bacteria
## 52   OTU_5268 0.001246571  100.00000   other_bacteria
## 65   OTU_5445 0.001245928  100.00000   other_bacteria
## 73   OTU_5523 0.001203475  100.00000   other_bacteria
## 126  OTU_8146 0.001189324  100.00000   other_bacteria
## 117  OTU_6193 0.001177746  100.00000   other_bacteria
## 130  OTU_8377 0.001172600  100.00000   other_bacteria
## 57   OTU_5355 0.001166811  100.00000   other_bacteria
## 121  OTU_7455 0.001155233  100.00000   other_bacteria
## 135   OTU_934 0.001105704  100.00000   other_bacteria
## 111  OTU_6047 0.001096056  100.00000   other_bacteria
## 131  OTU_8436 0.001076116  100.00000   other_bacteria
## 37   OTU_3789 0.001072257  100.00000   other_bacteria
## 62   OTU_5428 0.001061322  100.00000   other_bacteria
## 95   OTU_5815 0.001009221  100.00000   other_bacteria
## 29   OTU_3308 0.002037095   97.67442    Synechococcus
## 47   OTU_4991 0.001542454   97.67442   other_bacteria
## 35   OTU_3731 0.001457549   97.67442   other_bacteria
## 25   OTU_3198 0.001422171   97.67442   other_bacteria
## 40   OTU_4036 0.001363638   97.67442   other_bacteria
## 33   OTU_3347 0.001303175   97.67442   other_bacteria
## 60   OTU_5414 0.001180962   97.67442   other_bacteria
## 49   OTU_5211 0.001064538   97.67442   other_bacteria
## 10   OTU_2789 0.001038809   97.67442   other_bacteria
## 96   OTU_5817 0.001028517   97.67442   other_bacteria
## 21   OTU_3162 0.002374788   95.34884   other_bacteria
## 78   OTU_5633 0.002224917   95.34884   other_bacteria
## 64   OTU_5441 0.002144513   95.34884   other_bacteria
## 16   OTU_2877 0.002078261   95.34884   other_bacteria
## 54   OTU_5301 0.001798458   95.34884   other_bacteria
## 46   OTU_4926 0.001692326   95.34884   other_bacteria
## 13  OTU_27934 0.001637009   95.34884 Prymnesiophyceae
## 77   OTU_5624 0.001275516   95.34884   other_bacteria
## 69   OTU_5493 0.001247214   95.34884   other_bacteria
## 75   OTU_5586 0.001216982   95.34884   other_bacteria
## 106  OTU_5976 0.001137866   95.34884   other_bacteria
## 42   OTU_4083 0.001056176   95.34884   other_bacteria
## 4    OTU_1754 0.011012662   93.02326  Prochlorococcus
## 17   OTU_2893 0.008765876   93.02326   other_bacteria
## 123   OTU_761 0.008455198   93.02326  Prochlorococcus
## 8    OTU_2428 0.007725137   93.02326   other_bacteria
## 5    OTU_1942 0.006589201   93.02326  Prochlorococcus
## 9    OTU_2466 0.006459913   93.02326  Prochlorococcus
## 56   OTU_5330 0.004975992   93.02326  Prochlorococcus
## 15   OTU_2866 0.003493357   93.02326   other_bacteria
## 118   OTU_635 0.003076547   93.02326   other_bacteria
## 119   OTU_709 0.002999360   93.02326   other_bacteria
## 30   OTU_3311 0.002813468   93.02326  Prochlorococcus
## 87   OTU_5727 0.002681607   93.02326   other_bacteria
## 63   OTU_5432 0.002243570   93.02326   other_bacteria
## 1    OTU_1329 0.002220414   93.02326   other_bacteria
## 19   OTU_3004 0.002114282   93.02326   other_bacteria
## 116  OTU_6164 0.002097558   93.02326   other_bacteria
## 3    OTU_1738 0.001992712   93.02326   other_bacteria
## 20   OTU_3023 0.001945757   93.02326   other_bacteria
## 127  OTU_8153 0.001932249   93.02326   other_bacteria
## 90   OTU_5752 0.001832549   93.02326  Prochlorococcus
## 81   OTU_5653 0.001776589   93.02326   other_bacteria
## 27   OTU_3240 0.001768227   93.02326   other_bacteria
## 99   OTU_5879 0.001704547   93.02326   other_bacteria
## 55   OTU_5327 0.001557892   93.02326   other_bacteria
## 61    OTU_542 0.001507720   93.02326   other_bacteria
## 76   OTU_5607 0.001487137   93.02326   other_bacteria
## 7      OTU_23 0.001426674   93.02326   other_bacteria
## 86   OTU_5691 0.001422815   93.02326   other_bacteria
## 94   OTU_5804 0.001411880   93.02326   other_bacteria
## 83   OTU_5665 0.001373929   93.02326   other_bacteria
## 80   OTU_5651 0.001365568   93.02326   other_bacteria
## 84   OTU_5667 0.001355919   93.02326   other_bacteria
## 89   OTU_5742 0.001345628   93.02326   other_bacteria
## 74   OTU_5564 0.001339838   93.02326   other_bacteria
## 114  OTU_6102 0.001308320   93.02326   other_bacteria
## 31   OTU_3326 0.001297386   93.02326   other_bacteria
## 98   OTU_5823 0.001294813   93.02326   other_bacteria
## 72   OTU_5511 0.001268440   93.02326   other_bacteria
## 51   OTU_5266 0.001225988   93.02326   other_bacteria
## 26   OTU_3214 0.001211193   93.02326   other_bacteria
## 100  OTU_5880 0.001187394   93.02326   other_bacteria
## 67   OTU_5449 0.001184821   93.02326   other_bacteria
## 97   OTU_5821 0.001115996   93.02326   other_bacteria
## 108  OTU_5982 0.001101845   93.02326   other_bacteria
## 70   OTU_5499 0.001065181   93.02326   other_bacteria
## 48    OTU_520 0.001040095   93.02326   other_bacteria
## 110  OTU_5988 0.001034950   93.02326   other_bacteria
## 85   OTU_5679 0.001029161   93.02326   other_bacteria
## 93   OTU_5800 0.001017583   93.02326   other_bacteria
## 36   OTU_3736 0.007143661   90.69767  Prochlorococcus
## 28   OTU_3271 0.005548462   90.69767  Prochlorococcus
## 58   OTU_5398 0.005484140   90.69767  Prochlorococcus
## 59   OTU_5403 0.002296315   90.69767   other_bacteria
## 39   OTU_3810 0.001779161   90.69767   other_bacteria
## 82   OTU_5662 0.001399015   90.69767   other_bacteria
## 14  OTU_27938 0.001382291   90.69767    Pelagophyceae
## 120  OTU_7407 0.001337909   90.69767   other_bacteria
## 6     OTU_223 0.001009221   90.69767   other_bacteria
## 2    OTU_1676 0.002010079   88.37209  Prochlorococcus
## 102  OTU_5925 0.001358492   88.37209   other_bacteria
## 53   OTU_5288 0.001166811   88.37209  Prochlorococcus
## 50   OTU_5222 0.001100559   88.37209   other_bacteria
## 12  OTU_27901 0.003573760   86.04651 Prymnesiophyceae
## 113  OTU_6083 0.003113211   86.04651    Synechococcus
## 125  OTU_8011 0.003112568   86.04651   other_bacteria
## 22   OTU_3172 0.002929892   86.04651   other_bacteria
## 92   OTU_5786 0.001200259   86.04651    Synechococcus
## 24   OTU_3197 0.001805534   83.72093   other_bacteria
## 133  OTU_9255 0.001613209   83.72093    Synechococcus
## 134  OTU_9267 0.001118569   83.72093    Synechococcus
## 122   OTU_759 0.001045241   83.72093    Synechococcus
##                                                                                                                                                                           OTUId
## 23                                                            SILVA.v123_EU802563.1.1450_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 18                                                            SILVA.v123_EU802811.1.1440_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 66                                                            SILVA.v123_EU804325.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 11  PhytoREF_4979_AB199885_Eukaryota_Hacrobia_Haptophyta_Prymnesiophyceae_Prymnesiophyceae_X_Prymnesiales_Prymnesiales_X_Chrysochromulinaceae_Chrysochromulina_Chrysochromulina
## 41                                                            SILVA.v123_EF572460.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 128                                               SILVA.v123_EU050769.1.1397_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_alpha_proteobacterium
## 104                                                           SILVA.v123_JX016743.1.1433_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 79                                                            SILVA.v123_EU800179.1.1374_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 107                                                           SILVA.v123_EU802612.1.1434_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 112                                                                     SILVA.v123_EU802929.1.1358_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;uncultured_bacterium
## 91                                    SILVA.v123_EF574626.1.1492_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS4_marine_group;uncultured_bacterium
## 44                                                            SILVA.v123_EF573299.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 45                                                            SILVA.v123_GU061507.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 43                                                     SILVA.v123_FR684404.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 34                                                            SILVA.v123_GQ351167.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 32                                                            SILVA.v123_AF382134.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 115                                                           SILVA.v123_HQ671926.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 124                                                           SILVA.v123_EU803121.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 109                                                   SILVA.v123_AY700640.1.1494_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 105                                                           SILVA.v123_JN976625.1.1411_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 129                                                           SILVA.v123_KF799972.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 88                                                     SILVA.v123_FR683897.1.1434_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 38                                                            SILVA.v123_EU800456.1.1443_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 71                                                            SILVA.v123_EU801782.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 101                                                           SILVA.v123_EU805108.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 103                                                           SILVA.v123_EU805259.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 132                            SILVA.v123_FR686262.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;Candidatus_Pelagibacter;uncultured_marine_bacterium
## 68                                                            SILVA.v123_EU804185.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 52                                                        SILVA.v123_AACY023928123.190.1644_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;marine_metagenome
## 65                                                    SILVA.v123_EF574603.1.1499_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 73                                                     SILVA.v123_FR684943.1.1434_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 126                                   SILVA.v123_EU259796.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;Candidatus_Pelagibacter;uncultured_bacterium
## 117                                                    SILVA.v123_JN233419.1.1394_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 130                                                    SILVA.v123_FR686065.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 57                                    SILVA.v123_EU804555.1.1438_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;Candidatus_Pelagibacter;uncultured_bacterium
## 121                                   SILVA.v123_EU801950.1.1450_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;Candidatus_Pelagibacter;uncultured_bacterium
## 135                                                    SILVA.v123_FR684827.1.1435_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 111                                                           SILVA.v123_AY907723.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 131                                                           SILVA.v123_FJ744886.1.1319_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 37                                                            SILVA.v123_EU803119.1.1440_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 62                                                            SILVA.v123_GU940923.1.1380_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 95                                                     SILVA.v123_FR685223.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_marine_bacterium
## 29                                               CyanoDB_HQ672155.1.1438_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium
## 47                                      SILVA.v123_EU803186.1.1437_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae;uncultured;uncultured_bacterium
## 35                                  SILVA.v123_HQ242370.1.1436_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_SAR11_cluster_alpha_proteobacterium
## 25                                                                      SILVA.v123_EU802480.1.1262_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;uncultured_bacterium
## 40                                                            SILVA.v123_EU802672.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 33                                                            SILVA.v123_EU803155.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 60                                                            SILVA.v123_EU802363.1.1438_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 49                                   SILVA.v123_JN986566.1.1485_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS2b_marine_group;uncultured_bacterium
## 10                                                            SILVA.v123_EU802269.1.1439_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_1;uncultured_bacterium
## 96                                                            SILVA.v123_EU805301.1.1438_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 21                                             SILVA.v123_FJ825908.1.1508_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_marine_bacterium
## 78                     SILVA.v123_FN433431.1.1496_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS5_marine_group;uncultured_Flavobacteriia_bacterium
## 64                   SILVA.v123_AACY024102418.157.1623_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;marine_metagenome
## 16           SILVA.v123_EU394547.1.1451_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_alpha_proteobacterium
## 54                                                    SILVA.v123_EF575083.1.1498_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 46                                                            SILVA.v123_EU802923.1.1453_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_4;uncultured_bacterium
## 13                          PhytoREF_155_Eukaryota_Hacrobia_Haptophyta_Prymnesiophyceae_Prymnesiophyceae_X_Phaeocystales_Phaeocystales_X_Phaeocystaceae_Phaeocystis_Phaeocystis
## 77                       SILVA.v123_KC872373.1.1325_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 69                                                            SILVA.v123_KC873625.1.1348_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_2;uncultured_bacterium
## 75                                                     SILVA.v123_EU802302.1.1503_Bacteria;Proteobacteria;Deltaproteobacteria;SAR324_clade_Marine_group_B_;uncultured_bacterium
## 106                               SILVA.v123_AACY020555729.127.1634_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS4_marine_group;marine_metagenome
## 42                    SILVA.v123_FN433299.1.1479_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS2b_marine_group;uncultured_Flavobacteriia_bacterium
## 4                                              CyanoDB_EU802275.1.1357_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 17                                      SILVA.v123_EU803059.1.1291_Bacteria;Proteobacteria;Gammaproteobacteria;Cellvibrionales;Halieaceae;OM60_NOR5__clade;uncultured_bacterium
## 123                                            CyanoDB_EU237319.1.1311_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 8                                                     SILVA.v123_EU802338.1.1516_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 5                                              CyanoDB_EU802966.1.1361_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 9                                              CyanoDB_EU802290.1.1454_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 56                                             CyanoDB_JX945341.1.1455_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 15                                                    SILVA.v123_EF572179.1.1472_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 118                      SILVA.v123_EF573150.1.1450_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 119                      SILVA.v123_GU940917.1.1359_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 30                                             CyanoDB_EU804864.1.1440_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 87                                                                      SILVA.v123_EU802915.1.1434_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;uncultured_bacterium
## 63                                                                                       SILVA.v123_EF574089.1.1525_Bacteria;Marinimicrobia__SAR406_clade_;uncultured_bacterium
## 1                                       SILVA.v123_EU803046.1.1424_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae;uncultured;uncultured_bacterium
## 19                                                                                       SILVA.v123_EF574411.1.1527_Bacteria;Marinimicrobia__SAR406_clade_;uncultured_bacterium
## 116                                                   SILVA.v123_EF572431.1.1517_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 3                                     SILVA.v123_EU802529.1.1481_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 20                                                  SILVA.v123_AACY023939069.20.1514_Bacteria;Proteobacteria;Deltaproteobacteria;SAR324_clade_Marine_group_B_;marine_metagenome
## 127                              SILVA.v123_AACY020396101.1882.3388_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;marine_metagenome
## 90                              CyanoDB_AE017126.353331.354795_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_Prochlorococcus_Prochlorococcus_marinus
## 81                                                    SILVA.v123_EU805216.1.1503_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 27                                    SILVA.v123_GU940823.1.1357_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 99                                    SILVA.v123_EF574657.1.1483_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS4_marine_group;uncultured_bacterium
## 55                                                    SILVA.v123_EU802682.1.1495_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 61                                    SILVA.v123_EF575137.1.1492_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS4_marine_group;uncultured_bacterium
## 76                      SILVA.v123_AY033296.1.1499_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_actinobacterium_MB11A03
## 7                        SILVA.v123_JQ611213.1.1323_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 86                              SILVA.v123_JQ516699.1.1498_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_actinobacterium
## 94                            SILVA.v123_DQ009111.1.2063_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS2b_marine_group;uncultured_marine_bacterium
## 83                                                            SILVA.v123_JN985907.1.1452_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_4;uncultured_bacterium
## 80                                    SILVA.v123_JQ516679.1.1511_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 84                       SILVA.v123_KC872791.1.1339_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 89                                                            SILVA.v123_EF572670.1.1440_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_4;uncultured_bacterium
## 74                                                    SILVA.v123_EU802819.1.1500_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 114                     SILVA.v123_AF406543.1.1404_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_Gram_positive_bacterium
## 31                                                            SILVA.v123_EU802374.1.1489_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;uncultured_bacterium
## 98                                                    SILVA.v123_EU803095.1.1260_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 72                                                SILVA.v123_AACY020563509.792.2305_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;marine_metagenome
## 51                                    SILVA.v123_EF572435.1.1502_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;NS5_marine_group;uncultured_bacterium
## 26                       SILVA.v123_JX945338.1.1456_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 100                                                   SILVA.v123_EU802956.1.1452_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 67                       SILVA.v123_EU801696.1.1459_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 97                       SILVA.v123_KC873462.1.1334_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 108          SILVA.v123_JQ515581.1.1452_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_alpha_proteobacterium
## 70                                      SILVA.v123_EF573001.1.1489_Bacteria;Bacteroidetes;Flavobacteriia;Flavobacteriales;Flavobacteriaceae;Sufflavibacter;uncultured_bacterium
## 48                       SILVA.v123_KC294916.1.1411_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_bacterium
## 110                                                           SILVA.v123_KC294834.1.1413_Bacteria;Proteobacteria;Alphaproteobacteria;SAR11_clade;Surface_4;uncultured_bacterium
## 85                                    SILVA.v123_EU802614.1.1337_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 93                                    SILVA.v123_EU237342.1.1352_Bacteria;Actinobacteria;Acidimicrobiia;Acidimicrobiales;OM1_clade;Candidatus_Actinomarina;uncultured_bacterium
## 36                                             CyanoDB_EU802420.1.1442_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 28                                         CyanoDB_AY664090.1.1205_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_Prochlorococcus
## 58                                               CyanoDB_X52169.1.1473_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 59                                                       SILVA.v123_EU802502.1.1451_Bacteria;Proteobacteria;Alphaproteobacteria;Rickettsiales;SAR116_clade;uncultured_bacterium
## 39                                      SILVA.v123_EF575067.1.1452_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae;uncultured;uncultured_bacterium
## 82                                                SILVA.v123_EF575061.1.1479_Bacteria;Bacteroidetes;Cytophagia;Cytophagales;Flammeovirgaceae;Marinoscillum;uncultured_bacterium
## 14          PhytoREF_2512_NC_012898_Eukaryota_Stramenopiles_Ochrophyta_Pelagophyceae_Pelagophyceae_X_Pelagomonadales_Pelagomonadales_X_Pelagomonadaceae_Aureococcus_Aureococcus
## 120                                                                                      SILVA.v123_EF572465.1.1526_Bacteria;Marinimicrobia__SAR406_clade_;uncultured_bacterium
## 6                                       SILVA.v123_EF574498.1.1440_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae;uncultured;uncultured_bacterium
## 2                                              CyanoDB_EU802429.1.1451_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 102                                                   SILVA.v123_EF572710.1.1498_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;uncultured_bacterium
## 53                                             CyanoDB_EU802498.1.1435_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Prochlorococcus_uncultured_uncultured_bacterium
## 50                SILVA.v123_DQ009261.1.1979_Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;AEGEAN_169_marine_group;uncultured_marine_bacterium
## 12                PhytoREF_3719_KC900889_Eukaryota_Hacrobia_Haptophyta_Prymnesiophyceae_Prymnesiophyceae_X_Phaeocystales_Phaeocystales_X_Phaeocystaceae_Phaeocystis_Phaeocystis
## 113                                              CyanoDB_GU119298.1.1407_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium
## 125                       SILVA.v123_DQ906760.1.1497_Bacteria;Proteobacteria;Gammaproteobacteria;Arenicellales;Arenicellaceae;Arenicella;uncultured_Antarctic_sea_ice_bacterium
## 22                                               SILVA.v123_AACY020481938.3418.4929_Bacteria;Proteobacteria;Gammaproteobacteria;Oceanospirillales;SAR86_clade;marine_metagenome
## 92                                                 CyanoDB_X52171.1.1477_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium
## 24                                                                 SILVA.v123_AACY020443682.520.1932_Bacteria;Proteobacteria;Alphaproteobacteria;OCS116_clade;marine_metagenome
## 133                                          CyanoDB_AY664003.1.1207_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_Synechococcus
## 134                                                  CyanoDB_AJ639901.1.1481_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_Aphanothece_Aphanothece_sp.
## 122                                              CyanoDB_HQ672048.1.1451_Bacteria_Cyanobacteria_Cyanobacteria_SubsectionI_FamilyI_Synechococcus_uncultured_uncultured_bacterium

Number and proportion (%) of cosmopolitan OTUs:

## [1] 135
## [1] 0.684376

Number and proportion (%) of rare OTUs:

## [1] 13915
## [1] 70.54142

2.6) Taxonomic composition analysis

2.6.1) Normalized data

No. of OTUs and reads of the rearefied dataset:

## [1] 19726
## [1] 1554665

No. of OTUs and reads of phototrophic groups:

## [1] 660
## [1] 223710

No. of OTUs and reads of non-phototrophic groups:

## [1] 19066
## [1] 1330955


PHOTOTROPHS + HETEROTROPHS

Absolute values

##                      reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae                730            132                36
## Bolidophyceae                    173              6                28
## Chlorarachniophyceae              14              4                 5
## Chlorodendrophyceae                1              1                 1
## Chlorophyceae                      1              1                 1
## Cryptophyceae                   1764             26                28
## Cyanobacteria                 171040            346                43
## Dictyochophyceae                1282              7                42
## Dinophyceae                       12              5                 8
## Eustigmatophyceae                 14              2                 7
## Mamiellophyceae                15820             14                30
## Pavlovophyceae                     2              1                 2
## Pelagophyceae                   5550             10                43
## Phaeophyceae                       2              2                 2
## Pinguiophyceae                     1              1                 1
## Prymnesiophyceae               25887             50                43
## Pyramimonadaceae                  76              6                 9
## Rappemonads                      133              4                29
## Trebouxiophyceae                   1              1                 1
## other_Prasinophyceae            1154             21                38
## other_bacteria               1330955          19066                43
## other_plastids                    53             20                20


Relative values

##   reads_per_class    OTUs_per_class samples_per_class 
##           100.000           100.000          1069.767
##                      reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae       4.695545e-02    0.669167596         83.720930
## Bolidophyceae           1.112780e-02    0.030416709         65.116279
## Chlorarachniophyceae    9.005155e-04    0.020277806         11.627907
## Chlorodendrophyceae     6.432254e-05    0.005069451          2.325581
## Chlorophyceae           6.432254e-05    0.005069451          2.325581
## Cryptophyceae           1.134650e-01    0.131805739         65.116279
## Cyanobacteria           1.100173e+01    1.754030214        100.000000
## Dictyochophyceae        8.246149e-02    0.035486160         97.674419
## Dinophyceae             7.718705e-04    0.025347257         18.604651
## Eustigmatophyceae       9.005155e-04    0.010138903         16.279070
## Mamiellophyceae         1.017583e+00    0.070972321         69.767442
## Pavlovophyceae          1.286451e-04    0.005069451          4.651163
## Pelagophyceae           3.569901e-01    0.050694515        100.000000
## Phaeophyceae            1.286451e-04    0.010138903          4.651163
## Pinguiophyceae          6.432254e-05    0.005069451          2.325581
## Prymnesiophyceae        1.665118e+00    0.253472574        100.000000
## Pyramimonadaceae        4.888513e-03    0.030416709         20.930233
## Rappemonads             8.554898e-03    0.020277806         67.441860
## Trebouxiophyceae        6.432254e-05    0.005069451          2.325581
## other_Prasinophyceae    7.422821e-02    0.106458481         88.372093
## other_bacteria          8.561040e+01   96.654162020        100.000000
## other_plastids          3.409095e-03    0.101389030         46.511628



Reads per class vs. OTUs per class:



Reads per class vs. samples in which they occurr:


PHOTOTROPHS

Absolute values

##                      reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae                730            132                36
## Bolidophyceae                    173              6                28
## Chlorarachniophyceae              14              4                 5
## Chlorodendrophyceae                1              1                 1
## Chlorophyceae                      1              1                 1
## Cryptophyceae                   1764             26                28
## Cyanobacteria                 171040            346                43
## Dictyochophyceae                1282              7                42
## Dinophyceae                       12              5                 8
## Eustigmatophyceae                 14              2                 7
## Mamiellophyceae                15820             14                30
## Pavlovophyceae                     2              1                 2
## Pelagophyceae                   5550             10                43
## Phaeophyceae                       2              2                 2
## Pinguiophyceae                     1              1                 1
## Prymnesiophyceae               25887             50                43
## Pyramimonadaceae                  76              6                 9
## Rappemonads                      133              4                29
## Trebouxiophyceae                   1              1                 1
## other_Prasinophyceae            1154             21                38
## other_plastids                    53             20                20


Relative values

##   reads_per_class    OTUs_per_class samples_per_class 
##          100.0000          100.0000          969.7674
##                      reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae       3.263153e-01     20.0000000         83.720930
## Bolidophyceae           7.733226e-02      0.9090909         65.116279
## Chlorarachniophyceae    6.258102e-03      0.6060606         11.627907
## Chlorodendrophyceae     4.470073e-04      0.1515152          2.325581
## Chlorophyceae           4.470073e-04      0.1515152          2.325581
## Cryptophyceae           7.885209e-01      3.9393939         65.116279
## Cyanobacteria           7.645613e+01     52.4242424        100.000000
## Dictyochophyceae        5.730633e-01      1.0606061         97.674419
## Dinophyceae             5.364087e-03      0.7575758         18.604651
## Eustigmatophyceae       6.258102e-03      0.3030303         16.279070
## Mamiellophyceae         7.071655e+00      2.1212121         69.767442
## Pavlovophyceae          8.940146e-04      0.1515152          4.651163
## Pelagophyceae           2.480890e+00      1.5151515        100.000000
## Phaeophyceae            8.940146e-04      0.3030303          4.651163
## Pinguiophyceae          4.470073e-04      0.1515152          2.325581
## Prymnesiophyceae        1.157168e+01      7.5757576        100.000000
## Pyramimonadaceae        3.397255e-02      0.9090909         20.930233
## Rappemonads             5.945197e-02      0.6060606         67.441860
## Trebouxiophyceae        4.470073e-04      0.1515152          2.325581
## other_Prasinophyceae    5.158464e-01      3.1818182         88.372093
## other_plastids          2.369139e-02      3.0303030         46.511628



Reads per class vs. OTUs per class:



Reads per class vs. samples in which they occurr:

2.6.2) Non-rarefied data

No. of OTUs and reads of the rearefied dataset:

## [1] 24691
## [1] 3684059

No. of OTUs and reads of phototrophic groups:

## [1] 736
## [1] 512635

No. of OTUs and reads of non-phototrophic groups:

## [1] 23955
## [1] 3171424


PHOTOTROPHS + HETEROTROPHS

Absolute values

##                      reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae               1777            168                39
## Bolidophyceae                    312              7                34
## Chlorarachniophyceae              33              5                 8
## Chlorodendrophyceae                2              2                 2
## Chlorophyceae                      2              2                 2
## Cryptophyceae                   3872             28                31
## Cyanobacteria                 400768            364                43
## Dictyochophyceae                2954              7                43
## Dinophyceae                       25              6                11
## Eustigmatophyceae                 25              2                 9
## Mamiellophyceae                32273             15                31
## Pavlovophyceae                     2              1                 2
## Pelagophyceae                  11504             10                43
## Phaeophyceae                       2              2                 2
## Pinguiophyceae                     3              1                 3
## Prymnesiophyceae               55897             50                43
## Pyramimonadaceae                 147              7                11
## Rappemonads                      249              4                37
## Trebouxiophyceae                   1              1                 1
## other_Prasinophyceae            2694             26                41
## other_bacteria               3171424          23955                43
## other_plastids                    93             28                20


Relative values

##   reads_per_class    OTUs_per_class samples_per_class 
##           100.000           100.000          1160.465
##                      reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae       4.823484e-02    0.680409866         90.697674
## Bolidophyceae           8.468920e-03    0.028350411         79.069767
## Chlorarachniophyceae    8.957511e-04    0.020250294         18.604651
## Chlorodendrophyceae     5.428795e-05    0.008100117          4.651163
## Chlorophyceae           5.428795e-05    0.008100117          4.651163
## Cryptophyceae           1.051015e-01    0.113401644         72.093023
## Cyanobacteria           1.087844e+01    1.474221376        100.000000
## Dictyochophyceae        8.018330e-02    0.028350411        100.000000
## Dinophyceae             6.785993e-04    0.024300352         25.581395
## Eustigmatophyceae       6.785993e-04    0.008100117         20.930233
## Mamiellophyceae         8.760175e-01    0.060750881         72.093023
## Pavlovophyceae          5.428795e-05    0.004050059          4.651163
## Pelagophyceae           3.122643e-01    0.040500587        100.000000
## Phaeophyceae            5.428795e-05    0.008100117          4.651163
## Pinguiophyceae          8.143192e-05    0.004050059          6.976744
## Prymnesiophyceae        1.517267e+00    0.202502936        100.000000
## Pyramimonadaceae        3.990164e-03    0.028350411         25.581395
## Rappemonads             6.758849e-03    0.016200235         86.046512
## Trebouxiophyceae        2.714397e-05    0.004050059          2.325581
## other_Prasinophyceae    7.312586e-02    0.105301527         95.348837
## other_bacteria          8.608505e+01   97.019156778        100.000000
## other_plastids          2.524390e-03    0.113401644         46.511628



Reads per class vs. OTUs per class:



Reads per class vs. samples in which they occurr:


PHOTOTROPHS

Absolute values

##                      reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae               1777            168                39
## Bolidophyceae                    312              7                34
## Chlorarachniophyceae              33              5                 8
## Chlorodendrophyceae                2              2                 2
## Chlorophyceae                      2              2                 2
## Cryptophyceae                   3872             28                31
## Cyanobacteria                 400768            364                43
## Dictyochophyceae                2954              7                43
## Dinophyceae                       25              6                11
## Eustigmatophyceae                 25              2                 9
## Mamiellophyceae                32273             15                31
## Pavlovophyceae                     2              1                 2
## Pelagophyceae                  11504             10                43
## Phaeophyceae                       2              2                 2
## Pinguiophyceae                     3              1                 3
## Prymnesiophyceae               55897             50                43
## Pyramimonadaceae                 147              7                11
## Rappemonads                      249              4                37
## Trebouxiophyceae                   1              1                 1
## other_Prasinophyceae            2694             26                41
## other_plastids                    93             28                29


Relative values

##   reads_per_class    OTUs_per_class samples_per_class 
##           100.000           100.000          1081.395
##                      reads_per_class OTUs_per_class samples_per_class
## Bacillariophyceae       3.466404e-01     22.8260870         90.697674
## Bolidophyceae           6.086202e-02      0.9510870         79.069767
## Chlorarachniophyceae    6.437329e-03      0.6793478         18.604651
## Chlorodendrophyceae     3.901411e-04      0.2717391          4.651163
## Chlorophyceae           3.901411e-04      0.2717391          4.651163
## Cryptophyceae           7.553132e-01      3.8043478         72.093023
## Cyanobacteria           7.817804e+01     49.4565217        100.000000
## Dictyochophyceae        5.762385e-01      0.9510870        100.000000
## Dinophyceae             4.876764e-03      0.8152174         25.581395
## Eustigmatophyceae       4.876764e-03      0.2717391         20.930233
## Mamiellophyceae         6.295512e+00      2.0380435         72.093023
## Pavlovophyceae          3.901411e-04      0.1358696          4.651163
## Pelagophyceae           2.244092e+00      1.3586957        100.000000
## Phaeophyceae            3.901411e-04      0.2717391          4.651163
## Pinguiophyceae          5.852117e-04      0.1358696          6.976744
## Prymnesiophyceae        1.090386e+01      6.7934783        100.000000
## Pyramimonadaceae        2.867537e-02      0.9510870         25.581395
## Rappemonads             4.857257e-02      0.5434783         86.046512
## Trebouxiophyceae        1.950706e-04      0.1358696          2.325581
## other_Prasinophyceae    5.255201e-01      3.5326087         95.348837
## other_plastids          1.814156e-02      3.8043478         67.441860



Reads per class vs. OTUs per class:



Reads per class vs. samples in which they occurr:






Absolute values of cyanobacteria groups richness and abundance:

##                     reads_per_class OTUs_per_class
## Prochlorococcus              292825            101
## Synechococcus                100390            105
## other_cyanobacteria            7553            158

Relative values of Cyanobacteria groups richness and abundance:

##                     reads_per_class OTUs_per_class
## Prochlorococcus           73.065963       27.74725
## Synechococcus             25.049405       28.84615
## Other cyanobacteria        1.884632       43.40659